-- dump date 20140618_193601 -- class Genbank::misc_feature -- table misc_feature_note -- id note 393595000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 393595000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 393595000003 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 393595000004 Walker A motif; other site 393595000005 ATP binding site [chemical binding]; other site 393595000006 Walker B motif; other site 393595000007 arginine finger; other site 393595000008 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 393595000009 DnaA box-binding interface [nucleotide binding]; other site 393595000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 393595000011 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 393595000012 putative DNA binding surface [nucleotide binding]; other site 393595000013 dimer interface [polypeptide binding]; other site 393595000014 beta-clamp/clamp loader binding surface; other site 393595000015 beta-clamp/translesion DNA polymerase binding surface; other site 393595000016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 393595000017 Q-loop/lid; other site 393595000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 393595000019 ABC transporter signature motif; other site 393595000020 Walker B; other site 393595000021 D-loop; other site 393595000022 H-loop/switch region; other site 393595000023 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 393595000024 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 393595000025 ATP binding site [chemical binding]; other site 393595000026 Mg2+ binding site [ion binding]; other site 393595000027 G-X-G motif; other site 393595000028 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 393595000029 anchoring element; other site 393595000030 dimer interface [polypeptide binding]; other site 393595000031 ATP binding site [chemical binding]; other site 393595000032 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 393595000033 active site 393595000034 putative metal-binding site [ion binding]; other site 393595000035 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 393595000036 H-NS histone family; Region: Histone_HNS; pfam00816 393595000037 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 393595000038 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 393595000039 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 393595000040 putative acyl-acceptor binding pocket; other site 393595000041 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 393595000042 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 393595000043 active site 393595000044 motif I; other site 393595000045 motif II; other site 393595000046 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 393595000047 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 393595000048 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 393595000049 dimer interface [polypeptide binding]; other site 393595000050 motif 1; other site 393595000051 active site 393595000052 motif 2; other site 393595000053 motif 3; other site 393595000054 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 393595000055 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 393595000056 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 393595000057 Walker A motif; other site 393595000058 ATP binding site [chemical binding]; other site 393595000059 Walker B motif; other site 393595000060 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 393595000061 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 393595000062 G1 box; other site 393595000063 GTP/Mg2+ binding site [chemical binding]; other site 393595000064 G2 box; other site 393595000065 Switch I region; other site 393595000066 G3 box; other site 393595000067 Switch II region; other site 393595000068 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 393595000069 MarR family; Region: MarR_2; cl17246 393595000070 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 393595000071 Fusaric acid resistance protein family; Region: FUSC; pfam04632 393595000072 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 393595000073 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 393595000074 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 393595000075 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 393595000076 HlyD family secretion protein; Region: HlyD_3; pfam13437 393595000077 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 393595000078 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 393595000079 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 393595000080 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595000081 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595000082 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 393595000083 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 393595000084 tetrameric interface [polypeptide binding]; other site 393595000085 NAD binding site [chemical binding]; other site 393595000086 catalytic residues [active] 393595000087 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 393595000088 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595000089 active site 393595000090 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 393595000091 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 393595000092 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 393595000093 Pirin-related protein [General function prediction only]; Region: COG1741 393595000094 Pirin; Region: Pirin; pfam02678 393595000095 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 393595000096 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 393595000097 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 393595000098 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 393595000099 putative dimer interface [polypeptide binding]; other site 393595000100 N-terminal domain interface [polypeptide binding]; other site 393595000101 putative substrate binding pocket (H-site) [chemical binding]; other site 393595000102 azoreductase; Reviewed; Region: PRK00170 393595000103 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 393595000104 Transcriptional regulator [Transcription]; Region: LysR; COG0583 393595000105 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595000106 LysR substrate binding domain; Region: LysR_substrate; pfam03466 393595000107 dimerization interface [polypeptide binding]; other site 393595000108 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 393595000109 sensor protein QseC; Provisional; Region: PRK10337 393595000110 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 393595000111 dimer interface [polypeptide binding]; other site 393595000112 phosphorylation site [posttranslational modification] 393595000113 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 393595000114 ATP binding site [chemical binding]; other site 393595000115 G-X-G motif; other site 393595000116 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 393595000117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595000118 active site 393595000119 phosphorylation site [posttranslational modification] 393595000120 intermolecular recognition site; other site 393595000121 dimerization interface [polypeptide binding]; other site 393595000122 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 393595000123 DNA binding site [nucleotide binding] 393595000124 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 393595000125 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 393595000126 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 393595000127 catalytic residues [active] 393595000128 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 393595000129 catalytic residues [active] 393595000130 dihydroorotase; Validated; Region: pyrC; PRK09357 393595000131 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 393595000132 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 393595000133 active site 393595000134 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 393595000135 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 393595000136 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 393595000137 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 393595000138 active site 393595000139 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 393595000140 hypothetical protein; Provisional; Region: PRK03757 393595000141 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 393595000142 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 393595000143 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 393595000144 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 393595000145 Phosphotransferase enzyme family; Region: APH; pfam01636 393595000146 putative active site [active] 393595000147 putative substrate binding site [chemical binding]; other site 393595000148 ATP binding site [chemical binding]; other site 393595000149 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 393595000150 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 393595000151 substrate binding pocket [chemical binding]; other site 393595000152 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 393595000153 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 393595000154 catalytic triad [active] 393595000155 dimer interface [polypeptide binding]; other site 393595000156 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 393595000157 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 393595000158 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 393595000159 metal ion-dependent adhesion site (MIDAS); other site 393595000160 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 393595000161 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 393595000162 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 393595000163 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 393595000164 catalytic triad [active] 393595000165 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 393595000166 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 393595000167 putative trimer interface [polypeptide binding]; other site 393595000168 putative CoA binding site [chemical binding]; other site 393595000169 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 393595000170 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 393595000171 trimer interface [polypeptide binding]; other site 393595000172 active site 393595000173 substrate binding site [chemical binding]; other site 393595000174 CoA binding site [chemical binding]; other site 393595000175 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595000176 WHG domain; Region: WHG; pfam13305 393595000177 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 393595000178 putative acyl-acceptor binding pocket; other site 393595000179 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 393595000180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 393595000181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 393595000182 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 393595000183 hypothetical protein; Provisional; Region: PRK09256 393595000184 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 393595000185 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 393595000186 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 393595000187 putative NAD(P) binding site [chemical binding]; other site 393595000188 YcaO domain protein; Region: TIGR03549 393595000189 OsmC-like protein; Region: OsmC; pfam02566 393595000190 YcaO-like family; Region: YcaO; pfam02624 393595000191 Hemerythrin; Region: Hemerythrin; cd12107 393595000192 Fe binding site [ion binding]; other site 393595000193 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 393595000194 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 393595000195 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 393595000196 FAD binding domain; Region: FAD_binding_4; pfam01565 393595000197 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 393595000198 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 393595000199 ligand binding site [chemical binding]; other site 393595000200 NAD binding site [chemical binding]; other site 393595000201 tetramer interface [polypeptide binding]; other site 393595000202 catalytic site [active] 393595000203 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 393595000204 L-serine binding site [chemical binding]; other site 393595000205 ACT domain interface; other site 393595000206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 393595000207 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 393595000208 putative dimer interface [polypeptide binding]; other site 393595000209 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 393595000210 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 393595000211 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 393595000212 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 393595000213 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 393595000214 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 393595000215 HPP family; Region: HPP; pfam04982 393595000216 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 393595000217 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 393595000218 TrkA-N domain; Region: TrkA_N; pfam02254 393595000219 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 393595000220 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 393595000221 N-terminal plug; other site 393595000222 ligand-binding site [chemical binding]; other site 393595000223 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 393595000224 putative hydrophobic ligand binding site [chemical binding]; other site 393595000225 protein interface [polypeptide binding]; other site 393595000226 gate; other site 393595000227 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 393595000228 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 393595000229 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 393595000230 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 393595000231 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 393595000232 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 393595000233 active site 393595000234 (T/H)XGH motif; other site 393595000235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 393595000236 Transposase; Region: HTH_Tnp_1; pfam01527 393595000237 Integrase core domain; Region: rve; pfam00665 393595000238 Integrase core domain; Region: rve_3; pfam13683 393595000239 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 393595000240 ATP binding site [chemical binding]; other site 393595000241 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 393595000242 dehydrogenase, Rv0697 family; Region: Rv0697; TIGR03970 393595000243 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 393595000244 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 393595000245 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 393595000246 NAD(P) binding site [chemical binding]; other site 393595000247 catalytic residues [active] 393595000248 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595000249 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595000250 Bacterial transcriptional repressor; Region: TetR; pfam13972 393595000251 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 393595000252 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 393595000253 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 393595000254 EamA-like transporter family; Region: EamA; pfam00892 393595000255 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 393595000256 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 393595000257 conserved cys residue [active] 393595000258 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 393595000259 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 393595000260 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 393595000261 dimer interface [polypeptide binding]; other site 393595000262 active site 393595000263 metal binding site [ion binding]; metal-binding site 393595000264 glutathione binding site [chemical binding]; other site 393595000265 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 393595000266 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 393595000267 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 393595000268 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 393595000269 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 393595000270 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 393595000271 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 393595000272 putative acyl-acceptor binding pocket; other site 393595000273 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 393595000274 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 393595000275 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 393595000276 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 393595000277 CheB methylesterase; Region: CheB_methylest; pfam01339 393595000278 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 393595000279 putative binding surface; other site 393595000280 active site 393595000281 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 393595000282 putative binding surface; other site 393595000283 active site 393595000284 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 393595000285 putative binding surface; other site 393595000286 active site 393595000287 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 393595000288 putative binding surface; other site 393595000289 active site 393595000290 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 393595000291 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 393595000292 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 393595000293 ATP binding site [chemical binding]; other site 393595000294 Mg2+ binding site [ion binding]; other site 393595000295 G-X-G motif; other site 393595000296 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 393595000297 Response regulator receiver domain; Region: Response_reg; pfam00072 393595000298 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595000299 active site 393595000300 phosphorylation site [posttranslational modification] 393595000301 intermolecular recognition site; other site 393595000302 dimerization interface [polypeptide binding]; other site 393595000303 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 393595000304 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 393595000305 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 393595000306 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 393595000307 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 393595000308 dimer interface [polypeptide binding]; other site 393595000309 putative CheW interface [polypeptide binding]; other site 393595000310 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 393595000311 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 393595000312 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595000313 active site 393595000314 phosphorylation site [posttranslational modification] 393595000315 intermolecular recognition site; other site 393595000316 dimerization interface [polypeptide binding]; other site 393595000317 Response regulator receiver domain; Region: Response_reg; pfam00072 393595000318 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595000319 active site 393595000320 phosphorylation site [posttranslational modification] 393595000321 intermolecular recognition site; other site 393595000322 dimerization interface [polypeptide binding]; other site 393595000323 glutathione synthetase; Provisional; Region: PRK05246 393595000324 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 393595000325 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 393595000326 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 393595000327 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 393595000328 hypothetical protein; Validated; Region: PRK00228 393595000329 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 393595000330 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 393595000331 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 393595000332 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595000333 Helix-turn-helix domain; Region: HTH_18; pfam12833 393595000334 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595000335 S-formylglutathione hydrolase; Region: PLN02442 393595000336 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 393595000337 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 393595000338 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 393595000339 substrate binding site [chemical binding]; other site 393595000340 catalytic Zn binding site [ion binding]; other site 393595000341 NAD binding site [chemical binding]; other site 393595000342 structural Zn binding site [ion binding]; other site 393595000343 dimer interface [polypeptide binding]; other site 393595000344 LysR family transcriptional regulator; Provisional; Region: PRK14997 393595000345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595000346 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 393595000347 putative effector binding pocket; other site 393595000348 putative dimerization interface [polypeptide binding]; other site 393595000349 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 393595000350 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 393595000351 motif II; other site 393595000352 amidase; Provisional; Region: PRK07869 393595000353 Amidase; Region: Amidase; cl11426 393595000354 Transcriptional regulators [Transcription]; Region: GntR; COG1802 393595000355 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 393595000356 DNA-binding site [nucleotide binding]; DNA binding site 393595000357 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 393595000358 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 393595000359 Fatty acid desaturase; Region: FA_desaturase; pfam00487 393595000360 Di-iron ligands [ion binding]; other site 393595000361 Fimbrial protein; Region: Fimbrial; pfam00419 393595000362 putative chaperone protein EcpD; Provisional; Region: PRK09926 393595000363 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 393595000364 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 393595000365 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 393595000366 PapC N-terminal domain; Region: PapC_N; pfam13954 393595000367 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 393595000368 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 393595000369 Cation transport protein; Region: TrkH; cl17365 393595000370 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 393595000371 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 393595000372 TrkA-N domain; Region: TrkA_N; pfam02254 393595000373 TrkA-C domain; Region: TrkA_C; pfam02080 393595000374 TrkA-N domain; Region: TrkA_N; pfam02254 393595000375 TrkA-C domain; Region: TrkA_C; pfam02080 393595000376 16S rRNA methyltransferase B; Provisional; Region: PRK10901 393595000377 NusB family; Region: NusB; pfam01029 393595000378 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 393595000379 S-adenosylmethionine binding site [chemical binding]; other site 393595000380 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 393595000381 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 393595000382 putative active site [active] 393595000383 substrate binding site [chemical binding]; other site 393595000384 putative cosubstrate binding site; other site 393595000385 catalytic site [active] 393595000386 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 393595000387 substrate binding site [chemical binding]; other site 393595000388 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 393595000389 active site 393595000390 catalytic residues [active] 393595000391 metal binding site [ion binding]; metal-binding site 393595000392 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 393595000393 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 393595000394 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 393595000395 DNA protecting protein DprA; Region: dprA; TIGR00732 393595000396 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 393595000397 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 393595000398 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 393595000399 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 393595000400 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 393595000401 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 393595000402 shikimate binding site; other site 393595000403 NAD(P) binding site [chemical binding]; other site 393595000404 Ion channel; Region: Ion_trans_2; pfam07885 393595000405 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 393595000406 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 393595000407 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 393595000408 trimer interface [polypeptide binding]; other site 393595000409 putative metal binding site [ion binding]; other site 393595000410 oligopeptidase A; Provisional; Region: PRK10911 393595000411 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 393595000412 active site 393595000413 Zn binding site [ion binding]; other site 393595000414 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 393595000415 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 393595000416 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 393595000417 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595000418 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 393595000419 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595000420 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 393595000421 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 393595000422 FAD binding pocket [chemical binding]; other site 393595000423 FAD binding motif [chemical binding]; other site 393595000424 phosphate binding motif [ion binding]; other site 393595000425 beta-alpha-beta structure motif; other site 393595000426 NAD binding pocket [chemical binding]; other site 393595000427 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 393595000428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595000429 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 393595000430 putative dimerization interface [polypeptide binding]; other site 393595000431 cobalamin synthase; Reviewed; Region: cobS; PRK00235 393595000432 enoyl-CoA hydratase; Provisional; Region: PRK06142 393595000433 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 393595000434 substrate binding site [chemical binding]; other site 393595000435 oxyanion hole (OAH) forming residues; other site 393595000436 trimer interface [polypeptide binding]; other site 393595000437 Protein of unknown function, DUF393; Region: DUF393; pfam04134 393595000438 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 393595000439 DNA-binding site [nucleotide binding]; DNA binding site 393595000440 RNA-binding motif; other site 393595000441 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 393595000442 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 393595000443 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 393595000444 intersubunit interface [polypeptide binding]; other site 393595000445 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 393595000446 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 393595000447 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 393595000448 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 393595000449 dimer interface [polypeptide binding]; other site 393595000450 putative PBP binding regions; other site 393595000451 ABC-ATPase subunit interface; other site 393595000452 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 393595000453 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 393595000454 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 393595000455 heme-binding site [chemical binding]; other site 393595000456 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 393595000457 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 393595000458 metal binding site [ion binding]; metal-binding site 393595000459 active site 393595000460 I-site; other site 393595000461 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 393595000462 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 393595000463 Rubredoxin [Energy production and conversion]; Region: COG1773 393595000464 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 393595000465 iron binding site [ion binding]; other site 393595000466 Chorismate lyase; Region: Chor_lyase; cl01230 393595000467 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 393595000468 UbiA prenyltransferase family; Region: UbiA; pfam01040 393595000469 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 393595000470 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595000471 active site 393595000472 phosphorylation site [posttranslational modification] 393595000473 intermolecular recognition site; other site 393595000474 dimerization interface [polypeptide binding]; other site 393595000475 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 393595000476 DNA binding site [nucleotide binding] 393595000477 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 393595000478 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 393595000479 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 393595000480 putative active site [active] 393595000481 heme pocket [chemical binding]; other site 393595000482 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 393595000483 dimer interface [polypeptide binding]; other site 393595000484 phosphorylation site [posttranslational modification] 393595000485 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 393595000486 ATP binding site [chemical binding]; other site 393595000487 Mg2+ binding site [ion binding]; other site 393595000488 G-X-G motif; other site 393595000489 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 393595000490 Y-family of DNA polymerases; Region: PolY; cl12025 393595000491 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 393595000492 generic binding surface II; other site 393595000493 ssDNA binding site; other site 393595000494 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 393595000495 ATP binding site [chemical binding]; other site 393595000496 putative Mg++ binding site [ion binding]; other site 393595000497 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 393595000498 nucleotide binding region [chemical binding]; other site 393595000499 ATP-binding site [chemical binding]; other site 393595000500 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 393595000501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595000502 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 393595000503 dimerization interface [polypeptide binding]; other site 393595000504 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 393595000505 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 393595000506 NAD(P) binding site [chemical binding]; other site 393595000507 active site 393595000508 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 393595000509 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 393595000510 ATP-grasp domain; Region: ATP-grasp; pfam02222 393595000511 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 393595000512 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 393595000513 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 393595000514 homotrimer interaction site [polypeptide binding]; other site 393595000515 putative active site [active] 393595000516 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 393595000517 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 393595000518 Zn2+ binding site [ion binding]; other site 393595000519 Mg2+ binding site [ion binding]; other site 393595000520 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 393595000521 synthetase active site [active] 393595000522 NTP binding site [chemical binding]; other site 393595000523 metal binding site [ion binding]; metal-binding site 393595000524 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 393595000525 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 393595000526 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 393595000527 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 393595000528 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 393595000529 catalytic site [active] 393595000530 G-X2-G-X-G-K; other site 393595000531 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 393595000532 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 393595000533 putative active site [active] 393595000534 Zn binding site [ion binding]; other site 393595000535 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 393595000536 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 393595000537 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 393595000538 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 393595000539 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 393595000540 CoenzymeA binding site [chemical binding]; other site 393595000541 subunit interaction site [polypeptide binding]; other site 393595000542 PHB binding site; other site 393595000543 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 393595000544 CoenzymeA binding site [chemical binding]; other site 393595000545 subunit interaction site [polypeptide binding]; other site 393595000546 PHB binding site; other site 393595000547 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 393595000548 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 393595000549 acyl-activating enzyme (AAE) consensus motif; other site 393595000550 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 393595000551 putative AMP binding site [chemical binding]; other site 393595000552 putative active site [active] 393595000553 acyl-activating enzyme (AAE) consensus motif; other site 393595000554 putative CoA binding site [chemical binding]; other site 393595000555 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 393595000556 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 393595000557 FAD binding site [chemical binding]; other site 393595000558 substrate binding site [chemical binding]; other site 393595000559 catalytic base [active] 393595000560 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 393595000561 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 393595000562 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595000563 active site 393595000564 choline dehydrogenase; Validated; Region: PRK02106 393595000565 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 393595000566 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 393595000567 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 393595000568 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 393595000569 short chain dehydrogenase; Provisional; Region: PRK07832 393595000570 classical (c) SDRs; Region: SDR_c; cd05233 393595000571 NAD(P) binding site [chemical binding]; other site 393595000572 active site 393595000573 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 393595000574 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 393595000575 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 393595000576 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 393595000577 Bacterial Ig-like domain; Region: Big_5; pfam13205 393595000578 Bacterial Ig-like domain; Region: Big_5; pfam13205 393595000579 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 393595000580 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 393595000581 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 393595000582 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 393595000583 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 393595000584 classical (c) SDRs; Region: SDR_c; cd05233 393595000585 short chain dehydrogenase; Provisional; Region: PRK05650 393595000586 NAD(P) binding site [chemical binding]; other site 393595000587 active site 393595000588 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 393595000589 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 393595000590 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595000591 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595000592 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 393595000593 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595000594 Helix-turn-helix domain; Region: HTH_18; pfam12833 393595000595 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595000596 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 393595000597 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 393595000598 catalytic loop [active] 393595000599 iron binding site [ion binding]; other site 393595000600 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 393595000601 Cytochrome P450; Region: p450; cl12078 393595000602 choline dehydrogenase; Validated; Region: PRK02106 393595000603 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 393595000604 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 393595000605 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 393595000606 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 393595000607 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 393595000608 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 393595000609 hypothetical protein; Provisional; Region: PRK11820 393595000610 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 393595000611 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 393595000612 ribonuclease PH; Reviewed; Region: rph; PRK00173 393595000613 Ribonuclease PH; Region: RNase_PH_bact; cd11362 393595000614 hexamer interface [polypeptide binding]; other site 393595000615 active site 393595000616 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 393595000617 active site 393595000618 division inhibitor protein; Provisional; Region: slmA; PRK09480 393595000619 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595000620 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 393595000621 feedback inhibition sensing region; other site 393595000622 homohexameric interface [polypeptide binding]; other site 393595000623 nucleotide binding site [chemical binding]; other site 393595000624 N-acetyl-L-glutamate binding site [chemical binding]; other site 393595000625 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 393595000626 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 393595000627 active site 393595000628 substrate binding site [chemical binding]; other site 393595000629 metal binding site [ion binding]; metal-binding site 393595000630 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 393595000631 trimer interface [polypeptide binding]; other site 393595000632 active site 393595000633 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 393595000634 Flavoprotein; Region: Flavoprotein; pfam02441 393595000635 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 393595000636 hypothetical protein; Reviewed; Region: PRK00024 393595000637 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 393595000638 MPN+ (JAMM) motif; other site 393595000639 Zinc-binding site [ion binding]; other site 393595000640 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 393595000641 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 393595000642 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 393595000643 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 393595000644 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 393595000645 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 393595000646 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 393595000647 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 393595000648 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 393595000649 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 393595000650 ATP binding site [chemical binding]; other site 393595000651 Walker A motif; other site 393595000652 hexamer interface [polypeptide binding]; other site 393595000653 Walker B motif; other site 393595000654 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 393595000655 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 393595000656 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 393595000657 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 393595000658 binding surface 393595000659 TPR motif; other site 393595000660 TPR repeat; Region: TPR_11; pfam13414 393595000661 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 393595000662 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 393595000663 Transposase; Region: HTH_Tnp_1; cl17663 393595000664 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; cl00236 393595000665 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 393595000666 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 393595000667 dimer interface [polypeptide binding]; other site 393595000668 ligand binding site [chemical binding]; other site 393595000669 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 393595000670 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega 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_Omega_like; cd03060 393595000671 putative GSH binding site (G-site) [chemical binding]; other site 393595000672 active site cysteine [active] 393595000673 putative C-terminal domain interface [polypeptide binding]; other site 393595000674 putative dimer interface [polypeptide binding]; other site 393595000675 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 393595000676 putative N-terminal domain interface [polypeptide binding]; other site 393595000677 putative dimer interface [polypeptide binding]; other site 393595000678 putative substrate binding pocket (H-site) [chemical binding]; other site 393595000679 BCCT family transporter; Region: BCCT; pfam02028 393595000680 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 393595000681 hypothetical protein; Provisional; Region: PRK09040 393595000682 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 393595000683 ligand binding site [chemical binding]; other site 393595000684 Domain of unknown function (DUF802); Region: DUF802; pfam05650 393595000685 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 393595000686 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 393595000687 Imelysin; Region: Peptidase_M75; cl09159 393595000688 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 393595000689 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 393595000690 Imelysin; Region: Peptidase_M75; cl09159 393595000691 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 393595000692 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 393595000693 DNA binding residues [nucleotide binding] 393595000694 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 393595000695 dimer interface [polypeptide binding]; other site 393595000696 putative metal binding site [ion binding]; other site 393595000697 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 393595000698 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 393595000699 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 393595000700 macrolide transporter subunit MacA; Provisional; Region: PRK11578 393595000701 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 393595000702 HlyD family secretion protein; Region: HlyD_3; pfam13437 393595000703 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 393595000704 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 393595000705 Walker A/P-loop; other site 393595000706 ATP binding site [chemical binding]; other site 393595000707 Q-loop/lid; other site 393595000708 ABC transporter signature motif; other site 393595000709 Walker B; other site 393595000710 D-loop; other site 393595000711 H-loop/switch region; other site 393595000712 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 393595000713 FtsX-like permease family; Region: FtsX; pfam02687 393595000714 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 393595000715 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 393595000716 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 393595000717 putative active site [active] 393595000718 Zn binding site [ion binding]; other site 393595000719 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 393595000720 putative active site [active] 393595000721 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 393595000722 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 393595000723 dimer interface [polypeptide binding]; other site 393595000724 active site 393595000725 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 393595000726 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 393595000727 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 393595000728 Walker A/P-loop; other site 393595000729 ATP binding site [chemical binding]; other site 393595000730 Q-loop/lid; other site 393595000731 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 393595000732 ABC transporter signature motif; other site 393595000733 Walker B; other site 393595000734 D-loop; other site 393595000735 ABC transporter; Region: ABC_tran_2; pfam12848 393595000736 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 393595000737 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 393595000738 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 393595000739 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 393595000740 inhibitor-cofactor binding pocket; inhibition site 393595000741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595000742 catalytic residue [active] 393595000743 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 393595000744 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 393595000745 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 393595000746 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 393595000747 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 393595000748 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 393595000749 LrgA family; Region: LrgA; pfam03788 393595000750 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 393595000751 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 393595000752 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 393595000753 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 393595000754 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 393595000755 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 393595000756 RNA binding site [nucleotide binding]; other site 393595000757 Response regulator receiver domain; Region: Response_reg; pfam00072 393595000758 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595000759 active site 393595000760 phosphorylation site [posttranslational modification] 393595000761 intermolecular recognition site; other site 393595000762 dimerization interface [polypeptide binding]; other site 393595000763 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 393595000764 Protein export membrane protein; Region: SecD_SecF; cl14618 393595000765 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 393595000766 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 393595000767 osmolarity response regulator; Provisional; Region: ompR; PRK09468 393595000768 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595000769 active site 393595000770 phosphorylation site [posttranslational modification] 393595000771 intermolecular recognition site; other site 393595000772 dimerization interface [polypeptide binding]; other site 393595000773 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 393595000774 DNA binding site [nucleotide binding] 393595000775 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 393595000776 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 393595000777 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 393595000778 dimer interface [polypeptide binding]; other site 393595000779 phosphorylation site [posttranslational modification] 393595000780 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 393595000781 ATP binding site [chemical binding]; other site 393595000782 Mg2+ binding site [ion binding]; other site 393595000783 G-X-G motif; other site 393595000784 Transglycosylase SLT domain; Region: SLT_2; pfam13406 393595000785 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 393595000786 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 393595000787 N-acetyl-D-glucosamine binding site [chemical binding]; other site 393595000788 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 393595000789 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 393595000790 TrkA-N domain; Region: TrkA_N; pfam02254 393595000791 TrkA-C domain; Region: TrkA_C; pfam02080 393595000792 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 393595000793 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 393595000794 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 393595000795 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 393595000796 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 393595000797 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 393595000798 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 393595000799 active site 393595000800 substrate-binding site [chemical binding]; other site 393595000801 metal-binding site [ion binding] 393595000802 ATP binding site [chemical binding]; other site 393595000803 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 393595000804 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 393595000805 dimerization interface [polypeptide binding]; other site 393595000806 domain crossover interface; other site 393595000807 redox-dependent activation switch; other site 393595000808 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 393595000809 RNA binding surface [nucleotide binding]; other site 393595000810 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 393595000811 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 393595000812 motif II; other site 393595000813 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 393595000814 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 393595000815 ADP-ribose binding site [chemical binding]; other site 393595000816 dimer interface [polypeptide binding]; other site 393595000817 active site 393595000818 nudix motif; other site 393595000819 metal binding site [ion binding]; metal-binding site 393595000820 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 393595000821 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 393595000822 active site 393595000823 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 393595000824 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 393595000825 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 393595000826 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 393595000827 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 393595000828 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 393595000829 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 393595000830 FMN binding site [chemical binding]; other site 393595000831 substrate binding site [chemical binding]; other site 393595000832 putative catalytic residue [active] 393595000833 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 393595000834 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595000835 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595000836 classical (c) SDRs; Region: SDR_c; cd05233 393595000837 short chain dehydrogenase; Provisional; Region: PRK05650 393595000838 NAD(P) binding site [chemical binding]; other site 393595000839 active site 393595000840 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 393595000841 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 393595000842 Uncharacterized conserved protein [Function unknown]; Region: COG3391 393595000843 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 393595000844 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 393595000845 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 393595000846 Walker A/P-loop; other site 393595000847 ATP binding site [chemical binding]; other site 393595000848 Q-loop/lid; other site 393595000849 ABC transporter signature motif; other site 393595000850 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 393595000851 Walker B; other site 393595000852 D-loop; other site 393595000853 H-loop/switch region; other site 393595000854 ABC transporter; Region: ABC_tran_2; pfam12848 393595000855 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 393595000856 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 393595000857 active site 393595000858 Ferrochelatase; Region: Ferrochelatase; pfam00762 393595000859 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 393595000860 C-terminal domain interface [polypeptide binding]; other site 393595000861 active site 393595000862 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 393595000863 active site 393595000864 N-terminal domain interface [polypeptide binding]; other site 393595000865 tartrate dehydrogenase; Provisional; Region: PRK08194 393595000866 isocitrate dehydrogenase; Provisional; Region: PRK08997 393595000867 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 393595000868 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 393595000869 Walker A/P-loop; other site 393595000870 ATP binding site [chemical binding]; other site 393595000871 Q-loop/lid; other site 393595000872 ABC transporter signature motif; other site 393595000873 Walker B; other site 393595000874 D-loop; other site 393595000875 H-loop/switch region; other site 393595000876 ABC-2 type transporter; Region: ABC2_membrane; cl17235 393595000877 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 393595000878 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 393595000879 Uncharacterized conserved protein [Function unknown]; Region: COG3268 393595000880 hypothetical protein; Provisional; Region: PRK01617 393595000881 SEC-C motif; Region: SEC-C; pfam02810 393595000882 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 393595000883 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 393595000884 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 393595000885 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 393595000886 SmpB-tmRNA interface; other site 393595000887 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 393595000888 Na2 binding site [ion binding]; other site 393595000889 putative substrate binding site 1 [chemical binding]; other site 393595000890 Na binding site 1 [ion binding]; other site 393595000891 putative substrate binding site 2 [chemical binding]; other site 393595000892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 393595000893 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 393595000894 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 393595000895 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 393595000896 metal binding site 2 [ion binding]; metal-binding site 393595000897 putative DNA binding helix; other site 393595000898 metal binding site 1 [ion binding]; metal-binding site 393595000899 dimer interface [polypeptide binding]; other site 393595000900 structural Zn2+ binding site [ion binding]; other site 393595000901 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 393595000902 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 393595000903 Walker A/P-loop; other site 393595000904 ATP binding site [chemical binding]; other site 393595000905 Q-loop/lid; other site 393595000906 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 393595000907 ABC transporter signature motif; other site 393595000908 Walker B; other site 393595000909 D-loop; other site 393595000910 H-loop/switch region; other site 393595000911 RDD family; Region: RDD; pfam06271 393595000912 HrcA protein C terminal domain; Region: HrcA; pfam01628 393595000913 GrpE; Region: GrpE; pfam01025 393595000914 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 393595000915 dimer interface [polypeptide binding]; other site 393595000916 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 393595000917 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 393595000918 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 393595000919 nucleotide binding site [chemical binding]; other site 393595000920 chaperone protein DnaJ; Provisional; Region: PRK10767 393595000921 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 393595000922 HSP70 interaction site [polypeptide binding]; other site 393595000923 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 393595000924 substrate binding site [polypeptide binding]; other site 393595000925 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 393595000926 Zn binding sites [ion binding]; other site 393595000927 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 393595000928 dimer interface [polypeptide binding]; other site 393595000929 dihydrodipicolinate reductase; Provisional; Region: PRK00048 393595000930 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 393595000931 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 393595000932 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 393595000933 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 393595000934 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 393595000935 catalytic site [active] 393595000936 subunit interface [polypeptide binding]; other site 393595000937 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 393595000938 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 393595000939 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 393595000940 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 393595000941 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 393595000942 ATP-grasp domain; Region: ATP-grasp_4; cl17255 393595000943 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 393595000944 IMP binding site; other site 393595000945 dimer interface [polypeptide binding]; other site 393595000946 interdomain contacts; other site 393595000947 partial ornithine binding site; other site 393595000948 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 393595000949 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 393595000950 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 393595000951 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 393595000952 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 393595000953 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 393595000954 S-adenosylmethionine binding site [chemical binding]; other site 393595000955 FtsH Extracellular; Region: FtsH_ext; pfam06480 393595000956 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 393595000957 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 393595000958 Walker A motif; other site 393595000959 ATP binding site [chemical binding]; other site 393595000960 Walker B motif; other site 393595000961 arginine finger; other site 393595000962 Peptidase family M41; Region: Peptidase_M41; pfam01434 393595000963 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 393595000964 dihydropteroate synthase; Region: DHPS; TIGR01496 393595000965 substrate binding pocket [chemical binding]; other site 393595000966 dimer interface [polypeptide binding]; other site 393595000967 inhibitor binding site; inhibition site 393595000968 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 393595000969 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 393595000970 active site 393595000971 substrate binding site [chemical binding]; other site 393595000972 metal binding site [ion binding]; metal-binding site 393595000973 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 393595000974 triosephosphate isomerase; Provisional; Region: PRK14567 393595000975 substrate binding site [chemical binding]; other site 393595000976 dimer interface [polypeptide binding]; other site 393595000977 catalytic triad [active] 393595000978 Preprotein translocase SecG subunit; Region: SecG; pfam03840 393595000979 ribosome maturation protein RimP; Reviewed; Region: PRK00092 393595000980 Sm and related proteins; Region: Sm_like; cl00259 393595000981 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 393595000982 putative oligomer interface [polypeptide binding]; other site 393595000983 putative RNA binding site [nucleotide binding]; other site 393595000984 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 393595000985 NusA N-terminal domain; Region: NusA_N; pfam08529 393595000986 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 393595000987 RNA binding site [nucleotide binding]; other site 393595000988 homodimer interface [polypeptide binding]; other site 393595000989 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 393595000990 G-X-X-G motif; other site 393595000991 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 393595000992 G-X-X-G motif; other site 393595000993 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 393595000994 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 393595000995 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 393595000996 translation initiation factor IF-2; Region: IF-2; TIGR00487 393595000997 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 393595000998 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 393595000999 G1 box; other site 393595001000 putative GEF interaction site [polypeptide binding]; other site 393595001001 GTP/Mg2+ binding site [chemical binding]; other site 393595001002 Switch I region; other site 393595001003 G2 box; other site 393595001004 G3 box; other site 393595001005 Switch II region; other site 393595001006 G4 box; other site 393595001007 G5 box; other site 393595001008 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 393595001009 Translation-initiation factor 2; Region: IF-2; pfam11987 393595001010 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 393595001011 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 393595001012 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 393595001013 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 393595001014 RNA binding site [nucleotide binding]; other site 393595001015 active site 393595001016 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 393595001017 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 393595001018 16S/18S rRNA binding site [nucleotide binding]; other site 393595001019 S13e-L30e interaction site [polypeptide binding]; other site 393595001020 25S rRNA binding site [nucleotide binding]; other site 393595001021 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 393595001022 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 393595001023 RNase E interface [polypeptide binding]; other site 393595001024 trimer interface [polypeptide binding]; other site 393595001025 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 393595001026 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 393595001027 RNase E interface [polypeptide binding]; other site 393595001028 trimer interface [polypeptide binding]; other site 393595001029 active site 393595001030 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 393595001031 putative nucleic acid binding region [nucleotide binding]; other site 393595001032 G-X-X-G motif; other site 393595001033 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 393595001034 RNA binding site [nucleotide binding]; other site 393595001035 domain interface; other site 393595001036 acetyl-CoA synthetase; Provisional; Region: PRK00174 393595001037 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 393595001038 active site 393595001039 CoA binding site [chemical binding]; other site 393595001040 acyl-activating enzyme (AAE) consensus motif; other site 393595001041 AMP binding site [chemical binding]; other site 393595001042 acetate binding site [chemical binding]; other site 393595001043 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 393595001044 tetramerization interface [polypeptide binding]; other site 393595001045 active site 393595001046 Pantoate-beta-alanine ligase; Region: PanC; cd00560 393595001047 pantoate--beta-alanine ligase; Region: panC; TIGR00018 393595001048 active site 393595001049 ATP-binding site [chemical binding]; other site 393595001050 pantoate-binding site; other site 393595001051 HXXH motif; other site 393595001052 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 393595001053 oligomerization interface [polypeptide binding]; other site 393595001054 active site 393595001055 metal binding site [ion binding]; metal-binding site 393595001056 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 393595001057 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 393595001058 Substrate-binding site [chemical binding]; other site 393595001059 Substrate specificity [chemical binding]; other site 393595001060 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 393595001061 catalytic center binding site [active] 393595001062 ATP binding site [chemical binding]; other site 393595001063 poly(A) polymerase; Region: pcnB; TIGR01942 393595001064 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 393595001065 active site 393595001066 NTP binding site [chemical binding]; other site 393595001067 metal binding triad [ion binding]; metal-binding site 393595001068 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 393595001069 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 393595001070 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 393595001071 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595001072 active site 393595001073 phosphorylation site [posttranslational modification] 393595001074 intermolecular recognition site; other site 393595001075 dimerization interface [polypeptide binding]; other site 393595001076 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 393595001077 Walker A motif; other site 393595001078 ATP binding site [chemical binding]; other site 393595001079 Walker B motif; other site 393595001080 arginine finger; other site 393595001081 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 393595001082 PAS domain; Region: PAS; smart00091 393595001083 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 393595001084 putative active site [active] 393595001085 heme pocket [chemical binding]; other site 393595001086 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 393595001087 dimer interface [polypeptide binding]; other site 393595001088 phosphorylation site [posttranslational modification] 393595001089 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 393595001090 ATP binding site [chemical binding]; other site 393595001091 Mg2+ binding site [ion binding]; other site 393595001092 G-X-G motif; other site 393595001093 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 393595001094 active site 393595001095 HIGH motif; other site 393595001096 nucleotide binding site [chemical binding]; other site 393595001097 active site 393595001098 KMSKS motif; other site 393595001099 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 393595001100 hypothetical protein; Provisional; Region: PRK08960 393595001101 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 393595001102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595001103 homodimer interface [polypeptide binding]; other site 393595001104 catalytic residue [active] 393595001105 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 393595001106 serine/threonine protein kinase; Provisional; Region: PRK11768 393595001107 Phosphotransferase enzyme family; Region: APH; pfam01636 393595001108 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 393595001109 iron-sulfur cluster [ion binding]; other site 393595001110 [2Fe-2S] cluster binding site [ion binding]; other site 393595001111 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 393595001112 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 393595001113 substrate binding site [chemical binding]; other site 393595001114 ATP binding site [chemical binding]; other site 393595001115 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 393595001116 Transglycosylase; Region: Transgly; pfam00912 393595001117 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 393595001118 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 393595001119 Tetratricopeptide repeat; Region: TPR_16; pfam13432 393595001120 binding surface 393595001121 TPR motif; other site 393595001122 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 393595001123 putative deacylase active site [active] 393595001124 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 393595001125 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 393595001126 inhibitor-cofactor binding pocket; inhibition site 393595001127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595001128 catalytic residue [active] 393595001129 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 393595001130 thiamine phosphate binding site [chemical binding]; other site 393595001131 active site 393595001132 pyrophosphate binding site [ion binding]; other site 393595001133 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 393595001134 dimer interface [polypeptide binding]; other site 393595001135 substrate binding site [chemical binding]; other site 393595001136 ATP binding site [chemical binding]; other site 393595001137 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 393595001138 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 393595001139 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 393595001140 putative ion selectivity filter; other site 393595001141 putative pore gating glutamate residue; other site 393595001142 putative H+/Cl- coupling transport residue; other site 393595001143 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 393595001144 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 393595001145 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 393595001146 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 393595001147 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 393595001148 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 393595001149 active site 393595001150 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 393595001151 putative peptidase; Provisional; Region: PRK11649 393595001152 Peptidase family M23; Region: Peptidase_M23; pfam01551 393595001153 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 393595001154 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 393595001155 active site 393595001156 HIGH motif; other site 393595001157 dimer interface [polypeptide binding]; other site 393595001158 KMSKS motif; other site 393595001159 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 393595001160 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 393595001161 acyl-activating enzyme (AAE) consensus motif; other site 393595001162 putative AMP binding site [chemical binding]; other site 393595001163 putative active site [active] 393595001164 putative CoA binding site [chemical binding]; other site 393595001165 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 393595001166 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 393595001167 dimerization interface [polypeptide binding]; other site 393595001168 putative DNA binding site [nucleotide binding]; other site 393595001169 putative Zn2+ binding site [ion binding]; other site 393595001170 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 393595001171 Type III pantothenate kinase; Region: Pan_kinase; pfam03309 393595001172 Sporulation related domain; Region: SPOR; pfam05036 393595001173 Sporulation related domain; Region: SPOR; pfam05036 393595001174 elongation factor Tu; Reviewed; Region: PRK00049 393595001175 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 393595001176 G1 box; other site 393595001177 GEF interaction site [polypeptide binding]; other site 393595001178 GTP/Mg2+ binding site [chemical binding]; other site 393595001179 Switch I region; other site 393595001180 G2 box; other site 393595001181 G3 box; other site 393595001182 Switch II region; other site 393595001183 G4 box; other site 393595001184 G5 box; other site 393595001185 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 393595001186 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 393595001187 Antibiotic Binding Site [chemical binding]; other site 393595001188 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 393595001189 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 393595001190 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 393595001191 putative homodimer interface [polypeptide binding]; other site 393595001192 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 393595001193 heterodimer interface [polypeptide binding]; other site 393595001194 homodimer interface [polypeptide binding]; other site 393595001195 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 393595001196 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 393595001197 23S rRNA interface [nucleotide binding]; other site 393595001198 L7/L12 interface [polypeptide binding]; other site 393595001199 putative thiostrepton binding site; other site 393595001200 L25 interface [polypeptide binding]; other site 393595001201 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 393595001202 mRNA/rRNA interface [nucleotide binding]; other site 393595001203 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 393595001204 23S rRNA interface [nucleotide binding]; other site 393595001205 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 393595001206 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 393595001207 peripheral dimer interface [polypeptide binding]; other site 393595001208 core dimer interface [polypeptide binding]; other site 393595001209 L10 interface [polypeptide binding]; other site 393595001210 L11 interface [polypeptide binding]; other site 393595001211 putative EF-Tu interaction site [polypeptide binding]; other site 393595001212 putative EF-G interaction site [polypeptide binding]; other site 393595001213 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 393595001214 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 393595001215 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 393595001216 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 393595001217 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 393595001218 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 393595001219 RPB3 interaction site [polypeptide binding]; other site 393595001220 RPB1 interaction site [polypeptide binding]; other site 393595001221 RPB11 interaction site [polypeptide binding]; other site 393595001222 RPB10 interaction site [polypeptide binding]; other site 393595001223 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 393595001224 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 393595001225 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 393595001226 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 393595001227 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 393595001228 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 393595001229 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 393595001230 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 393595001231 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 393595001232 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 393595001233 DNA binding site [nucleotide binding] 393595001234 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 393595001235 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 393595001236 S17 interaction site [polypeptide binding]; other site 393595001237 S8 interaction site; other site 393595001238 16S rRNA interaction site [nucleotide binding]; other site 393595001239 streptomycin interaction site [chemical binding]; other site 393595001240 23S rRNA interaction site [nucleotide binding]; other site 393595001241 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 393595001242 30S ribosomal protein S7; Validated; Region: PRK05302 393595001243 elongation factor G; Reviewed; Region: PRK00007 393595001244 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 393595001245 G1 box; other site 393595001246 putative GEF interaction site [polypeptide binding]; other site 393595001247 GTP/Mg2+ binding site [chemical binding]; other site 393595001248 Switch I region; other site 393595001249 G2 box; other site 393595001250 G3 box; other site 393595001251 Switch II region; other site 393595001252 G4 box; other site 393595001253 G5 box; other site 393595001254 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 393595001255 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 393595001256 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 393595001257 elongation factor Tu; Reviewed; Region: PRK00049 393595001258 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 393595001259 G1 box; other site 393595001260 GEF interaction site [polypeptide binding]; other site 393595001261 GTP/Mg2+ binding site [chemical binding]; other site 393595001262 Switch I region; other site 393595001263 G2 box; other site 393595001264 G3 box; other site 393595001265 Switch II region; other site 393595001266 G4 box; other site 393595001267 G5 box; other site 393595001268 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 393595001269 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 393595001270 Antibiotic Binding Site [chemical binding]; other site 393595001271 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 393595001272 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 393595001273 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 393595001274 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 393595001275 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 393595001276 PilZ domain; Region: PilZ; pfam07238 393595001277 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 393595001278 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 393595001279 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 393595001280 DHHW protein; Region: DHHW; pfam14286 393595001281 poly(beta-D-mannuronate) lyase; Provisional; Region: algL; PRK00325 393595001282 active site 393595001283 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 393595001284 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 393595001285 Substrate binding site; other site 393595001286 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 393595001287 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 393595001288 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 393595001289 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 393595001290 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 393595001291 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 393595001292 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 393595001293 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 393595001294 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 393595001295 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 393595001296 protein-rRNA interface [nucleotide binding]; other site 393595001297 putative translocon binding site; other site 393595001298 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 393595001299 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 393595001300 G-X-X-G motif; other site 393595001301 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 393595001302 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 393595001303 23S rRNA interface [nucleotide binding]; other site 393595001304 5S rRNA interface [nucleotide binding]; other site 393595001305 putative antibiotic binding site [chemical binding]; other site 393595001306 L25 interface [polypeptide binding]; other site 393595001307 L27 interface [polypeptide binding]; other site 393595001308 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 393595001309 23S rRNA interface [nucleotide binding]; other site 393595001310 putative translocon interaction site; other site 393595001311 signal recognition particle (SRP54) interaction site; other site 393595001312 L23 interface [polypeptide binding]; other site 393595001313 trigger factor interaction site; other site 393595001314 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 393595001315 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 393595001316 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 393595001317 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 393595001318 RNA binding site [nucleotide binding]; other site 393595001319 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 393595001320 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 393595001321 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 393595001322 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 393595001323 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 393595001324 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 393595001325 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 393595001326 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 393595001327 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 393595001328 5S rRNA interface [nucleotide binding]; other site 393595001329 23S rRNA interface [nucleotide binding]; other site 393595001330 L5 interface [polypeptide binding]; other site 393595001331 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 393595001332 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 393595001333 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 393595001334 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 393595001335 23S rRNA binding site [nucleotide binding]; other site 393595001336 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 393595001337 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 393595001338 SecY translocase; Region: SecY; pfam00344 393595001339 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 393595001340 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 393595001341 30S ribosomal protein S13; Region: bact_S13; TIGR03631 393595001342 30S ribosomal protein S11; Validated; Region: PRK05309 393595001343 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 393595001344 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 393595001345 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 393595001346 RNA binding surface [nucleotide binding]; other site 393595001347 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 393595001348 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 393595001349 alphaNTD homodimer interface [polypeptide binding]; other site 393595001350 alphaNTD - beta interaction site [polypeptide binding]; other site 393595001351 alphaNTD - beta' interaction site [polypeptide binding]; other site 393595001352 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 393595001353 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 393595001354 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 393595001355 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 393595001356 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 393595001357 putative active site [active] 393595001358 catalytic site [active] 393595001359 putative metal binding site [ion binding]; other site 393595001360 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 393595001361 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 393595001362 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 393595001363 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 393595001364 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 393595001365 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 393595001366 DNA binding residues [nucleotide binding] 393595001367 dimerization interface [polypeptide binding]; other site 393595001368 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 393595001369 Major Facilitator Superfamily; Region: MFS_1; pfam07690 393595001370 putative substrate translocation pore; other site 393595001371 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 393595001372 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 393595001373 dimer interface [polypeptide binding]; other site 393595001374 ssDNA binding site [nucleotide binding]; other site 393595001375 tetramer (dimer of dimers) interface [polypeptide binding]; other site 393595001376 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 393595001377 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 393595001378 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 393595001379 type II secretion system protein D; Region: type_II_gspD; TIGR02517 393595001380 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 393595001381 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 393595001382 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 393595001383 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 393595001384 dimerization interface [polypeptide binding]; other site 393595001385 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 393595001386 cyclase homology domain; Region: CHD; cd07302 393595001387 nucleotidyl binding site; other site 393595001388 metal binding site [ion binding]; metal-binding site 393595001389 dimer interface [polypeptide binding]; other site 393595001390 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 393595001391 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 393595001392 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 393595001393 catalytic site [active] 393595001394 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 393595001395 metal binding site [ion binding]; metal-binding site 393595001396 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 393595001397 putative FMN binding site [chemical binding]; other site 393595001398 Uncharacterized conserved protein [Function unknown]; Region: COG1359 393595001399 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 393595001400 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 393595001401 Walker A motif; other site 393595001402 ATP binding site [chemical binding]; other site 393595001403 Walker B motif; other site 393595001404 arginine finger; other site 393595001405 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 393595001406 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 393595001407 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 393595001408 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595001409 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 393595001410 dimer interface [polypeptide binding]; other site 393595001411 phosphorylation site [posttranslational modification] 393595001412 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 393595001413 ATP binding site [chemical binding]; other site 393595001414 Mg2+ binding site [ion binding]; other site 393595001415 G-X-G motif; other site 393595001416 Response regulator receiver domain; Region: Response_reg; pfam00072 393595001417 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595001418 active site 393595001419 phosphorylation site [posttranslational modification] 393595001420 intermolecular recognition site; other site 393595001421 dimerization interface [polypeptide binding]; other site 393595001422 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 393595001423 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 393595001424 ABC1 family; Region: ABC1; cl17513 393595001425 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 393595001426 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 393595001427 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595001428 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 393595001429 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595001430 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 393595001431 HIT family signature motif; other site 393595001432 catalytic residue [active] 393595001433 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 393595001434 Rdx family; Region: Rdx; cl01407 393595001435 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 393595001436 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 393595001437 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 393595001438 substrate binding pocket [chemical binding]; other site 393595001439 chain length determination region; other site 393595001440 substrate-Mg2+ binding site; other site 393595001441 catalytic residues [active] 393595001442 aspartate-rich region 1; other site 393595001443 active site lid residues [active] 393595001444 aspartate-rich region 2; other site 393595001445 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 393595001446 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 393595001447 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 393595001448 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 393595001449 GTP1/OBG; Region: GTP1_OBG; pfam01018 393595001450 Obg GTPase; Region: Obg; cd01898 393595001451 G1 box; other site 393595001452 GTP/Mg2+ binding site [chemical binding]; other site 393595001453 Switch I region; other site 393595001454 G2 box; other site 393595001455 G3 box; other site 393595001456 Switch II region; other site 393595001457 G4 box; other site 393595001458 G5 box; other site 393595001459 gamma-glutamyl kinase; Provisional; Region: PRK05429 393595001460 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 393595001461 nucleotide binding site [chemical binding]; other site 393595001462 homotetrameric interface [polypeptide binding]; other site 393595001463 putative phosphate binding site [ion binding]; other site 393595001464 putative allosteric binding site; other site 393595001465 PUA domain; Region: PUA; pfam01472 393595001466 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 393595001467 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 393595001468 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 393595001469 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 393595001470 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 393595001471 active site 393595001472 Riboflavin kinase; Region: Flavokinase; smart00904 393595001473 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 393595001474 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 393595001475 active site 393595001476 HIGH motif; other site 393595001477 nucleotide binding site [chemical binding]; other site 393595001478 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 393595001479 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 393595001480 active site 393595001481 KMSKS motif; other site 393595001482 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 393595001483 tRNA binding surface [nucleotide binding]; other site 393595001484 anticodon binding site; other site 393595001485 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 393595001486 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 393595001487 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 393595001488 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 393595001489 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 393595001490 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 393595001491 Type II transport protein GspH; Region: GspH; pfam12019 393595001492 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 393595001493 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 393595001494 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 393595001495 von Willebrand factor type A domain; Region: VWA_2; pfam13519 393595001496 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 393595001497 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 393595001498 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 393595001499 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 393595001500 Type II transport protein GspH; Region: GspH; pfam12019 393595001501 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 393595001502 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 393595001503 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595001504 active site 393595001505 phosphorylation site [posttranslational modification] 393595001506 intermolecular recognition site; other site 393595001507 dimerization interface [polypeptide binding]; other site 393595001508 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 393595001509 Walker A motif; other site 393595001510 ATP binding site [chemical binding]; other site 393595001511 Walker B motif; other site 393595001512 arginine finger; other site 393595001513 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 393595001514 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595001515 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 393595001516 dimer interface [polypeptide binding]; other site 393595001517 phosphorylation site [posttranslational modification] 393595001518 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 393595001519 ATP binding site [chemical binding]; other site 393595001520 Mg2+ binding site [ion binding]; other site 393595001521 G-X-G motif; other site 393595001522 NAD synthetase; Provisional; Region: PRK13981 393595001523 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 393595001524 multimer interface [polypeptide binding]; other site 393595001525 active site 393595001526 catalytic triad [active] 393595001527 protein interface 1 [polypeptide binding]; other site 393595001528 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 393595001529 homodimer interface [polypeptide binding]; other site 393595001530 NAD binding pocket [chemical binding]; other site 393595001531 ATP binding pocket [chemical binding]; other site 393595001532 Mg binding site [ion binding]; other site 393595001533 active-site loop [active] 393595001534 Outer membrane lipoprotein; Region: YfiO; pfam13525 393595001535 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 393595001536 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 393595001537 RNA binding surface [nucleotide binding]; other site 393595001538 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 393595001539 active site 393595001540 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 393595001541 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 393595001542 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 393595001543 Clp amino terminal domain; Region: Clp_N; pfam02861 393595001544 Clp amino terminal domain; Region: Clp_N; pfam02861 393595001545 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 393595001546 Walker A motif; other site 393595001547 ATP binding site [chemical binding]; other site 393595001548 Walker B motif; other site 393595001549 arginine finger; other site 393595001550 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 393595001551 Walker A motif; other site 393595001552 ATP binding site [chemical binding]; other site 393595001553 Walker B motif; other site 393595001554 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 393595001555 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 393595001556 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 393595001557 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 393595001558 PYR/PP interface [polypeptide binding]; other site 393595001559 dimer interface [polypeptide binding]; other site 393595001560 TPP binding site [chemical binding]; other site 393595001561 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 393595001562 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 393595001563 TPP-binding site [chemical binding]; other site 393595001564 dimer interface [polypeptide binding]; other site 393595001565 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 393595001566 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 393595001567 putative valine binding site [chemical binding]; other site 393595001568 dimer interface [polypeptide binding]; other site 393595001569 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 393595001570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595001571 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 393595001572 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 393595001573 putative dimerization interface [polypeptide binding]; other site 393595001574 ketol-acid reductoisomerase; Provisional; Region: PRK05479 393595001575 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 393595001576 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 393595001577 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 393595001578 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 393595001579 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 393595001580 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 393595001581 active site 393595001582 catalytic residues [active] 393595001583 lipid kinase YegS; Region: lip_kinase_YegS; TIGR03702 393595001584 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 393595001585 Predicted membrane protein [Function unknown]; Region: COG3205 393595001586 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595001587 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595001588 Predicted methyltransferase [General function prediction only]; Region: COG4798 393595001589 Methyltransferase domain; Region: Methyltransf_23; pfam13489 393595001590 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 393595001591 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 393595001592 HIGH motif; other site 393595001593 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 393595001594 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 393595001595 active site 393595001596 KMSKS motif; other site 393595001597 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 393595001598 tRNA binding surface [nucleotide binding]; other site 393595001599 anticodon binding site; other site 393595001600 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 393595001601 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 393595001602 multifunctional aminopeptidase A; Provisional; Region: PRK00913 393595001603 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 393595001604 interface (dimer of trimers) [polypeptide binding]; other site 393595001605 Substrate-binding/catalytic site; other site 393595001606 Zn-binding sites [ion binding]; other site 393595001607 Predicted permeases [General function prediction only]; Region: COG0795 393595001608 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 393595001609 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 393595001610 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 393595001611 RDD family; Region: RDD; pfam06271 393595001612 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 393595001613 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 393595001614 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 393595001615 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 393595001616 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 393595001617 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 393595001618 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 393595001619 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 393595001620 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 393595001621 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 393595001622 Protein export membrane protein; Region: SecD_SecF; pfam02355 393595001623 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 393595001624 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 393595001625 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 393595001626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595001627 homodimer interface [polypeptide binding]; other site 393595001628 catalytic residue [active] 393595001629 putative amidase; Provisional; Region: PRK06169 393595001630 Amidase; Region: Amidase; pfam01425 393595001631 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 393595001632 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 393595001633 NAD binding site [chemical binding]; other site 393595001634 ligand binding site [chemical binding]; other site 393595001635 catalytic site [active] 393595001636 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 393595001637 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 393595001638 inhibitor-cofactor binding pocket; inhibition site 393595001639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595001640 catalytic residue [active] 393595001641 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 393595001642 tartrate dehydrogenase; Provisional; Region: PRK08194 393595001643 succinic semialdehyde dehydrogenase; Region: PLN02278 393595001644 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 393595001645 tetramerization interface [polypeptide binding]; other site 393595001646 NAD(P) binding site [chemical binding]; other site 393595001647 catalytic residues [active] 393595001648 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 393595001649 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 393595001650 active site 393595001651 dimerization interface [polypeptide binding]; other site 393595001652 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 393595001653 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 393595001654 serine O-acetyltransferase; Region: cysE; TIGR01172 393595001655 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 393595001656 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 393595001657 trimer interface [polypeptide binding]; other site 393595001658 active site 393595001659 substrate binding site [chemical binding]; other site 393595001660 CoA binding site [chemical binding]; other site 393595001661 GTP-binding protein YchF; Reviewed; Region: PRK09601 393595001662 YchF GTPase; Region: YchF; cd01900 393595001663 G1 box; other site 393595001664 GTP/Mg2+ binding site [chemical binding]; other site 393595001665 Switch I region; other site 393595001666 G2 box; other site 393595001667 Switch II region; other site 393595001668 G3 box; other site 393595001669 G4 box; other site 393595001670 G5 box; other site 393595001671 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 393595001672 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 393595001673 putative active site [active] 393595001674 catalytic residue [active] 393595001675 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 393595001676 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 393595001677 5S rRNA interface [nucleotide binding]; other site 393595001678 CTC domain interface [polypeptide binding]; other site 393595001679 L16 interface [polypeptide binding]; other site 393595001680 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 393595001681 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 393595001682 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 393595001683 active site 393595001684 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 393595001685 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 393595001686 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 393595001687 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 393595001688 binding surface 393595001689 TPR motif; other site 393595001690 TPR repeat; Region: TPR_11; pfam13414 393595001691 TPR repeat; Region: TPR_11; pfam13414 393595001692 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 393595001693 binding surface 393595001694 TPR motif; other site 393595001695 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 393595001696 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 393595001697 tRNA; other site 393595001698 putative tRNA binding site [nucleotide binding]; other site 393595001699 putative NADP binding site [chemical binding]; other site 393595001700 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 393595001701 peptide chain release factor 1; Validated; Region: prfA; PRK00591 393595001702 This domain is found in peptide chain release factors; Region: PCRF; smart00937 393595001703 RF-1 domain; Region: RF-1; pfam00472 393595001704 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 393595001705 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 393595001706 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 393595001707 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 393595001708 ATP binding site [chemical binding]; other site 393595001709 substrate interface [chemical binding]; other site 393595001710 enoyl-CoA hydratase; Provisional; Region: PRK07509 393595001711 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 393595001712 substrate binding site [chemical binding]; other site 393595001713 oxyanion hole (OAH) forming residues; other site 393595001714 trimer interface [polypeptide binding]; other site 393595001715 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 393595001716 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 393595001717 GatB domain; Region: GatB_Yqey; smart00845 393595001718 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 393595001719 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 393595001720 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 393595001721 rod shape-determining protein MreB; Provisional; Region: PRK13927 393595001722 MreB and similar proteins; Region: MreB_like; cd10225 393595001723 nucleotide binding site [chemical binding]; other site 393595001724 Mg binding site [ion binding]; other site 393595001725 putative protofilament interaction site [polypeptide binding]; other site 393595001726 RodZ interaction site [polypeptide binding]; other site 393595001727 rod shape-determining protein MreC; Provisional; Region: PRK13922 393595001728 rod shape-determining protein MreC; Region: MreC; pfam04085 393595001729 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 393595001730 Maf-like protein; Region: Maf; pfam02545 393595001731 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 393595001732 active site 393595001733 dimer interface [polypeptide binding]; other site 393595001734 TIGR02099 family protein; Region: TIGR02099 393595001735 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 393595001736 nitrilase; Region: PLN02798 393595001737 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 393595001738 putative active site [active] 393595001739 catalytic triad [active] 393595001740 dimer interface [polypeptide binding]; other site 393595001741 protease TldD; Provisional; Region: tldD; PRK10735 393595001742 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 393595001743 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 393595001744 ligand binding site [chemical binding]; other site 393595001745 flexible hinge region; other site 393595001746 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 393595001747 Peptidase C13 family; Region: Peptidase_C13; cl02159 393595001748 Protein of unknown function (DUF615); Region: DUF615; pfam04751 393595001749 peptidase PmbA; Provisional; Region: PRK11040 393595001750 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 393595001751 MgtE intracellular N domain; Region: MgtE_N; smart00924 393595001752 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 393595001753 Divalent cation transporter; Region: MgtE; pfam01769 393595001754 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 393595001755 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 393595001756 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 393595001757 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 393595001758 4Fe-4S binding domain; Region: Fer4; cl02805 393595001759 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 393595001760 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 393595001761 [4Fe-4S] binding site [ion binding]; other site 393595001762 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 393595001763 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 393595001764 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 393595001765 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 393595001766 molybdopterin cofactor binding site; other site 393595001767 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 393595001768 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 393595001769 putative substrate translocation pore; other site 393595001770 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 393595001771 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 393595001772 regulatory protein interface [polypeptide binding]; other site 393595001773 active site 393595001774 regulatory phosphorylation site [posttranslational modification]; other site 393595001775 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 393595001776 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 393595001777 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 393595001778 active site 393595001779 phosphorylation site [posttranslational modification] 393595001780 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 393595001781 30S subunit binding site; other site 393595001782 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 393595001783 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 393595001784 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 393595001785 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 393595001786 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 393595001787 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 393595001788 Walker A/P-loop; other site 393595001789 ATP binding site [chemical binding]; other site 393595001790 Q-loop/lid; other site 393595001791 ABC transporter signature motif; other site 393595001792 Walker B; other site 393595001793 D-loop; other site 393595001794 H-loop/switch region; other site 393595001795 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 393595001796 OstA-like protein; Region: OstA; pfam03968 393595001797 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 393595001798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 393595001799 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 393595001800 active site 393595001801 motif I; other site 393595001802 motif II; other site 393595001803 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 393595001804 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 393595001805 putative active site [active] 393595001806 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 393595001807 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 393595001808 BolA-like protein; Region: BolA; cl00386 393595001809 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 393595001810 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 393595001811 hinge; other site 393595001812 active site 393595001813 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 393595001814 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 393595001815 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 393595001816 histidinol dehydrogenase; Region: hisD; TIGR00069 393595001817 NAD binding site [chemical binding]; other site 393595001818 dimerization interface [polypeptide binding]; other site 393595001819 product binding site; other site 393595001820 substrate binding site [chemical binding]; other site 393595001821 zinc binding site [ion binding]; other site 393595001822 catalytic residues [active] 393595001823 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 393595001824 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 393595001825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595001826 homodimer interface [polypeptide binding]; other site 393595001827 catalytic residue [active] 393595001828 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 393595001829 conserved hypothetical protein; Region: TIGR02231 393595001830 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 393595001831 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 393595001832 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 393595001833 protein binding site [polypeptide binding]; other site 393595001834 Uncharacterized conserved protein [Function unknown]; Region: COG0327 393595001835 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 393595001836 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 393595001837 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 393595001838 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 393595001839 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 393595001840 Predicted ATPase [General function prediction only]; Region: COG1485 393595001841 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 393595001842 Walker A/P-loop; other site 393595001843 ATP binding site [chemical binding]; other site 393595001844 ABC transporter signature motif; other site 393595001845 Walker B; other site 393595001846 D-loop; other site 393595001847 H-loop/switch region; other site 393595001848 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 393595001849 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595001850 active site 393595001851 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 393595001852 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 393595001853 active site 393595001854 catalytic triad [active] 393595001855 oxyanion hole [active] 393595001856 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 393595001857 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 393595001858 active site 393595001859 catalytic tetrad [active] 393595001860 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 393595001861 23S rRNA interface [nucleotide binding]; other site 393595001862 L3 interface [polypeptide binding]; other site 393595001863 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 393595001864 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 393595001865 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 393595001866 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 393595001867 [2Fe-2S] cluster binding site [ion binding]; other site 393595001868 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 393595001869 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 393595001870 Qi binding site; other site 393595001871 intrachain domain interface; other site 393595001872 interchain domain interface [polypeptide binding]; other site 393595001873 heme bH binding site [chemical binding]; other site 393595001874 heme bL binding site [chemical binding]; other site 393595001875 Qo binding site; other site 393595001876 interchain domain interface [polypeptide binding]; other site 393595001877 intrachain domain interface; other site 393595001878 Qi binding site; other site 393595001879 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 393595001880 Qo binding site; other site 393595001881 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 393595001882 stringent starvation protein A; Provisional; Region: sspA; PRK09481 393595001883 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 393595001884 C-terminal domain interface [polypeptide binding]; other site 393595001885 putative GSH binding site (G-site) [chemical binding]; other site 393595001886 dimer interface [polypeptide binding]; other site 393595001887 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 393595001888 dimer interface [polypeptide binding]; other site 393595001889 N-terminal domain interface [polypeptide binding]; other site 393595001890 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 393595001891 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 393595001892 BON domain; Region: BON; pfam04972 393595001893 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 393595001894 dimer interface [polypeptide binding]; other site 393595001895 active site 393595001896 hypothetical protein; Reviewed; Region: PRK12497 393595001897 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 393595001898 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 393595001899 putative ligand binding site [chemical binding]; other site 393595001900 Predicted methyltransferases [General function prediction only]; Region: COG0313 393595001901 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 393595001902 putative SAM binding site [chemical binding]; other site 393595001903 putative homodimer interface [polypeptide binding]; other site 393595001904 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 393595001905 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 393595001906 cell division protein MraZ; Reviewed; Region: PRK00326 393595001907 MraZ protein; Region: MraZ; pfam02381 393595001908 MraZ protein; Region: MraZ; pfam02381 393595001909 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 393595001910 MraW methylase family; Region: Methyltransf_5; cl17771 393595001911 Cell division protein FtsL; Region: FtsL; pfam04999 393595001912 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 393595001913 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 393595001914 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 393595001915 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 393595001916 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 393595001917 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 393595001918 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 393595001919 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 393595001920 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 393595001921 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 393595001922 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 393595001923 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 393595001924 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 393595001925 Mg++ binding site [ion binding]; other site 393595001926 putative catalytic motif [active] 393595001927 putative substrate binding site [chemical binding]; other site 393595001928 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 393595001929 TrkA-N domain; Region: TrkA_N; pfam02254 393595001930 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 393595001931 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 393595001932 cell division protein FtsW; Region: ftsW; TIGR02614 393595001933 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 393595001934 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 393595001935 active site 393595001936 homodimer interface [polypeptide binding]; other site 393595001937 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 393595001938 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 393595001939 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 393595001940 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 393595001941 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 393595001942 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 393595001943 ATP-grasp domain; Region: ATP-grasp_4; cl17255 393595001944 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 393595001945 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 393595001946 Cell division protein FtsQ; Region: FtsQ; pfam03799 393595001947 cell division protein FtsA; Region: ftsA; TIGR01174 393595001948 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 393595001949 nucleotide binding site [chemical binding]; other site 393595001950 Cell division protein FtsA; Region: FtsA; pfam14450 393595001951 cell division protein FtsZ; Validated; Region: PRK09330 393595001952 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 393595001953 nucleotide binding site [chemical binding]; other site 393595001954 SulA interaction site; other site 393595001955 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 393595001956 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 393595001957 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 393595001958 Peptidase family M23; Region: Peptidase_M23; pfam01551 393595001959 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 393595001960 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 393595001961 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 393595001962 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; cl17351 393595001963 nucleotide binding region [chemical binding]; other site 393595001964 ATP-binding site [chemical binding]; other site 393595001965 SEC-C motif; Region: SEC-C; pfam02810 393595001966 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 393595001967 heterotetramer interface [polypeptide binding]; other site 393595001968 active site pocket [active] 393595001969 cleavage site 393595001970 hypothetical protein; Provisional; Region: PRK08999 393595001971 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 393595001972 active site 393595001973 8-oxo-dGMP binding site [chemical binding]; other site 393595001974 nudix motif; other site 393595001975 metal binding site [ion binding]; metal-binding site 393595001976 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 393595001977 thiamine phosphate binding site [chemical binding]; other site 393595001978 pyrophosphate binding site [ion binding]; other site 393595001979 active site 393595001980 Domain of unknown function (DUF329); Region: DUF329; pfam03884 393595001981 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 393595001982 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 393595001983 CoA-binding site [chemical binding]; other site 393595001984 ATP-binding [chemical binding]; other site 393595001985 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 393595001986 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 393595001987 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 393595001988 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 393595001989 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 393595001990 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 393595001991 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 393595001992 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 393595001993 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 393595001994 Walker A motif; other site 393595001995 ATP binding site [chemical binding]; other site 393595001996 Walker B motif; other site 393595001997 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 393595001998 Pilin (bacterial filament); Region: Pilin; pfam00114 393595001999 O-Antigen ligase; Region: Wzy_C; cl04850 393595002000 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 393595002001 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 393595002002 dimerization interface [polypeptide binding]; other site 393595002003 active site 393595002004 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 393595002005 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 393595002006 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 393595002007 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 393595002008 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 393595002009 amidase catalytic site [active] 393595002010 Zn binding residues [ion binding]; other site 393595002011 substrate binding site [chemical binding]; other site 393595002012 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 393595002013 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 393595002014 dimer interface [polypeptide binding]; other site 393595002015 TPP-binding site [chemical binding]; other site 393595002016 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 393595002017 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 393595002018 E3 interaction surface; other site 393595002019 lipoyl attachment site [posttranslational modification]; other site 393595002020 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 393595002021 E3 interaction surface; other site 393595002022 lipoyl attachment site [posttranslational modification]; other site 393595002023 e3 binding domain; Region: E3_binding; pfam02817 393595002024 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 393595002025 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 393595002026 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595002027 active site 393595002028 phosphorylation site [posttranslational modification] 393595002029 intermolecular recognition site; other site 393595002030 dimerization interface [polypeptide binding]; other site 393595002031 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 393595002032 DNA binding site [nucleotide binding] 393595002033 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 393595002034 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 393595002035 dimerization interface [polypeptide binding]; other site 393595002036 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 393595002037 dimer interface [polypeptide binding]; other site 393595002038 phosphorylation site [posttranslational modification] 393595002039 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 393595002040 ATP binding site [chemical binding]; other site 393595002041 Mg2+ binding site [ion binding]; other site 393595002042 G-X-G motif; other site 393595002043 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 393595002044 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 393595002045 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 393595002046 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 393595002047 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 393595002048 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 393595002049 muropeptide transporter; Validated; Region: ampG; cl17669 393595002050 muropeptide transporter; Validated; Region: ampG; cl17669 393595002051 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 393595002052 DNA binding site [nucleotide binding] 393595002053 active site 393595002054 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 393595002055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 393595002056 NAD(P) binding site [chemical binding]; other site 393595002057 active site 393595002058 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 393595002059 oligomerisation interface [polypeptide binding]; other site 393595002060 mobile loop; other site 393595002061 roof hairpin; other site 393595002062 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 393595002063 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 393595002064 ring oligomerisation interface [polypeptide binding]; other site 393595002065 ATP/Mg binding site [chemical binding]; other site 393595002066 stacking interactions; other site 393595002067 hinge regions; other site 393595002068 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 393595002069 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 393595002070 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 393595002071 putative active site [active] 393595002072 putative NTP binding site [chemical binding]; other site 393595002073 putative nucleic acid binding site [nucleotide binding]; other site 393595002074 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 393595002075 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 393595002076 active site 393595002077 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 393595002078 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 393595002079 2-isopropylmalate synthase; Validated; Region: PRK00915 393595002080 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 393595002081 active site 393595002082 catalytic residues [active] 393595002083 metal binding site [ion binding]; metal-binding site 393595002084 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 393595002085 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 393595002086 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 393595002087 Coenzyme A binding pocket [chemical binding]; other site 393595002088 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 393595002089 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 393595002090 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 393595002091 G1 box; other site 393595002092 putative GEF interaction site [polypeptide binding]; other site 393595002093 GTP/Mg2+ binding site [chemical binding]; other site 393595002094 Switch I region; other site 393595002095 G2 box; other site 393595002096 G3 box; other site 393595002097 Switch II region; other site 393595002098 G4 box; other site 393595002099 G5 box; other site 393595002100 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 393595002101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 393595002102 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 393595002103 putative active site [active] 393595002104 putative catalytic site [active] 393595002105 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 393595002106 PLD-like domain; Region: PLDc_2; pfam13091 393595002107 putative active site [active] 393595002108 putative catalytic site [active] 393595002109 3-oxoacyl-acyl carrier protein synthase; Provisional; Region: PTZ00050 393595002110 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 393595002111 active site 393595002112 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 393595002113 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 393595002114 dimer interface [polypeptide binding]; other site 393595002115 active site 393595002116 superoxide dismutase; Provisional; Region: PRK10543 393595002117 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 393595002118 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 393595002119 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 393595002120 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 393595002121 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 393595002122 active site 393595002123 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 393595002124 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 393595002125 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 393595002126 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 393595002127 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 393595002128 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 393595002129 NAD binding site [chemical binding]; other site 393595002130 homodimer interface [polypeptide binding]; other site 393595002131 homotetramer interface [polypeptide binding]; other site 393595002132 active site 393595002133 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 393595002134 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 393595002135 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 393595002136 active site 393595002137 DNA polymerase IV; Validated; Region: PRK02406 393595002138 DNA binding site [nucleotide binding] 393595002139 hypothetical protein; Provisional; Region: PRK06184 393595002140 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 393595002141 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 393595002142 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 393595002143 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 393595002144 S-adenosylmethionine binding site [chemical binding]; other site 393595002145 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 393595002146 Predicted transcriptional regulators [Transcription]; Region: COG1733 393595002147 classical (c) SDRs; Region: SDR_c; cd05233 393595002148 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 393595002149 NAD(P) binding site [chemical binding]; other site 393595002150 active site 393595002151 Transcriptional activator [Transcription]; Region: ChrR; COG3806 393595002152 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 393595002153 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 393595002154 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595002155 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 393595002156 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595002157 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 393595002158 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 393595002159 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 393595002160 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 393595002161 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 393595002162 putative metal binding site [ion binding]; other site 393595002163 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 393595002164 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 393595002165 catalytic loop [active] 393595002166 iron binding site [ion binding]; other site 393595002167 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 393595002168 FAD binding pocket [chemical binding]; other site 393595002169 FAD binding motif [chemical binding]; other site 393595002170 phosphate binding motif [ion binding]; other site 393595002171 beta-alpha-beta structure motif; other site 393595002172 NAD binding pocket [chemical binding]; other site 393595002173 Rieske non-heme iron oxygenase (RO) family, 2-Oxoquinoline 8-monooxygenase (OMO) and Carbazole 1,9a-dioxygenase (CARDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_OMO_CARDO; cd03548 393595002174 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 393595002175 iron-sulfur cluster [ion binding]; other site 393595002176 alpha subunit interaction site [polypeptide binding]; other site 393595002177 Homotrimeric ring hydroxylase; Region: Aromatic_hydrox; pfam11723 393595002178 hydrophobic ligand binding site; other site 393595002179 Rieske non-heme iron oxygenase (RO) family, 2-Oxoquinoline 8-monooxygenase (OMO) and Carbazole 1,9a-dioxygenase (CARDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_OMO_CARDO; cd03548 393595002180 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 393595002181 iron-sulfur cluster [ion binding]; other site 393595002182 alpha subunit interaction site [polypeptide binding]; other site 393595002183 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 393595002184 alpha subunit interface [polypeptide binding]; other site 393595002185 active site 393595002186 substrate binding site [chemical binding]; other site 393595002187 Fe binding site [ion binding]; other site 393595002188 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 393595002189 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 393595002190 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 393595002191 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595002192 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 393595002193 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 393595002194 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 393595002195 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 393595002196 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 393595002197 cleavage site 393595002198 active site 393595002199 substrate binding sites [chemical binding]; other site 393595002200 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 393595002201 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 393595002202 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 393595002203 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 393595002204 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 393595002205 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 393595002206 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 393595002207 putative acyl-acceptor binding pocket; other site 393595002208 elongation factor P; Provisional; Region: PRK04542 393595002209 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 393595002210 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 393595002211 RNA binding site [nucleotide binding]; other site 393595002212 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 393595002213 RNA binding site [nucleotide binding]; other site 393595002214 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 393595002215 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 393595002216 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 393595002217 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 393595002218 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 393595002219 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 393595002220 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 393595002221 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 393595002222 putative metal binding site [ion binding]; other site 393595002223 Uncharacterized conserved protein [Function unknown]; Region: COG1432 393595002224 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 393595002225 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 393595002226 Coenzyme A binding pocket [chemical binding]; other site 393595002227 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 393595002228 aconitate hydratase; Validated; Region: PRK09277 393595002229 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 393595002230 substrate binding site [chemical binding]; other site 393595002231 ligand binding site [chemical binding]; other site 393595002232 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 393595002233 substrate binding site [chemical binding]; other site 393595002234 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 393595002235 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 393595002236 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 393595002237 putative acyl-acceptor binding pocket; other site 393595002238 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 393595002239 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 393595002240 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 393595002241 TrkA-N domain; Region: TrkA_N; pfam02254 393595002242 TrkA-C domain; Region: TrkA_C; pfam02080 393595002243 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 393595002244 Spore Coat Protein U domain; Region: SCPU; cl02253 393595002245 Spore Coat Protein U domain; Region: SCPU; pfam05229 393595002246 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 393595002247 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 393595002248 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 393595002249 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 393595002250 Spore Coat Protein U domain; Region: SCPU; pfam05229 393595002251 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 393595002252 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 393595002253 NAD(P) binding site [chemical binding]; other site 393595002254 catalytic residues [active] 393595002255 acetolactate synthase; Reviewed; Region: PRK08322 393595002256 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 393595002257 PYR/PP interface [polypeptide binding]; other site 393595002258 dimer interface [polypeptide binding]; other site 393595002259 TPP binding site [chemical binding]; other site 393595002260 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 393595002261 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 393595002262 TPP-binding site [chemical binding]; other site 393595002263 dimer interface [polypeptide binding]; other site 393595002264 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 393595002265 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 393595002266 active site 393595002267 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 393595002268 peroxiredoxin; Provisional; Region: PRK13189 393595002269 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 393595002270 dimer interface [polypeptide binding]; other site 393595002271 decamer (pentamer of dimers) interface [polypeptide binding]; other site 393595002272 catalytic triad [active] 393595002273 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 393595002274 dimer interface [polypeptide binding]; other site 393595002275 putative radical transfer pathway; other site 393595002276 diiron center [ion binding]; other site 393595002277 tyrosyl radical; other site 393595002278 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 393595002279 ATP cone domain; Region: ATP-cone; pfam03477 393595002280 ATP cone domain; Region: ATP-cone; pfam03477 393595002281 Class I ribonucleotide reductase; Region: RNR_I; cd01679 393595002282 active site 393595002283 dimer interface [polypeptide binding]; other site 393595002284 catalytic residues [active] 393595002285 effector binding site; other site 393595002286 R2 peptide binding site; other site 393595002287 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 393595002288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595002289 active site 393595002290 phosphorylation site [posttranslational modification] 393595002291 intermolecular recognition site; other site 393595002292 dimerization interface [polypeptide binding]; other site 393595002293 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 393595002294 DNA binding site [nucleotide binding] 393595002295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595002296 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 393595002297 dimerization interface [polypeptide binding]; other site 393595002298 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 393595002299 dimer interface [polypeptide binding]; other site 393595002300 phosphorylation site [posttranslational modification] 393595002301 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 393595002302 ATP binding site [chemical binding]; other site 393595002303 Mg2+ binding site [ion binding]; other site 393595002304 G-X-G motif; other site 393595002305 glycerol kinase; Provisional; Region: glpK; PRK00047 393595002306 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 393595002307 N- and C-terminal domain interface [polypeptide binding]; other site 393595002308 active site 393595002309 MgATP binding site [chemical binding]; other site 393595002310 catalytic site [active] 393595002311 metal binding site [ion binding]; metal-binding site 393595002312 glycerol binding site [chemical binding]; other site 393595002313 homotetramer interface [polypeptide binding]; other site 393595002314 homodimer interface [polypeptide binding]; other site 393595002315 FBP binding site [chemical binding]; other site 393595002316 protein IIAGlc interface [polypeptide binding]; other site 393595002317 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 393595002318 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 393595002319 metal binding site [ion binding]; metal-binding site 393595002320 active site 393595002321 I-site; other site 393595002322 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 393595002323 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 393595002324 metal binding site [ion binding]; metal-binding site 393595002325 active site 393595002326 I-site; other site 393595002327 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 393595002328 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 393595002329 Walker A/P-loop; other site 393595002330 ATP binding site [chemical binding]; other site 393595002331 Q-loop/lid; other site 393595002332 ABC transporter signature motif; other site 393595002333 Walker B; other site 393595002334 D-loop; other site 393595002335 H-loop/switch region; other site 393595002336 TOBE domain; Region: TOBE_2; pfam08402 393595002337 ornithine carbamoyltransferase; Provisional; Region: PRK00779 393595002338 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 393595002339 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 393595002340 acetylornithine aminotransferase; Provisional; Region: PRK02627 393595002341 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 393595002342 inhibitor-cofactor binding pocket; inhibition site 393595002343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595002344 catalytic residue [active] 393595002345 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 393595002346 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 393595002347 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 393595002348 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 393595002349 N-terminal plug; other site 393595002350 ligand-binding site [chemical binding]; other site 393595002351 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 393595002352 putative GSH binding site [chemical binding]; other site 393595002353 catalytic residues [active] 393595002354 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 393595002355 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 393595002356 dimer interface [polypeptide binding]; other site 393595002357 decamer (pentamer of dimers) interface [polypeptide binding]; other site 393595002358 catalytic triad [active] 393595002359 peroxidatic and resolving cysteines [active] 393595002360 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 393595002361 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 393595002362 dimer interface [polypeptide binding]; other site 393595002363 catalytic site [active] 393595002364 putative active site [active] 393595002365 putative substrate binding site [chemical binding]; other site 393595002366 argininosuccinate synthase; Provisional; Region: PRK13820 393595002367 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 393595002368 ANP binding site [chemical binding]; other site 393595002369 Substrate Binding Site II [chemical binding]; other site 393595002370 Substrate Binding Site I [chemical binding]; other site 393595002371 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 393595002372 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 393595002373 dimer interface [polypeptide binding]; other site 393595002374 active site 393595002375 metal binding site [ion binding]; metal-binding site 393595002376 glutathione binding site [chemical binding]; other site 393595002377 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 393595002378 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 393595002379 ATP-grasp domain; Region: ATP-grasp_4; cl17255 393595002380 Predicted deacylase [General function prediction only]; Region: COG3608 393595002381 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 393595002382 putative active site [active] 393595002383 Zn binding site [ion binding]; other site 393595002384 ATP sulphurylase; Region: sopT; TIGR00339 393595002385 ATP-sulfurylase; Region: ATPS; cd00517 393595002386 active site 393595002387 HXXH motif; other site 393595002388 flexible loop; other site 393595002389 YecR-like lipoprotein; Region: YecR; pfam13992 393595002390 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 393595002391 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 393595002392 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 393595002393 ATP binding site [chemical binding]; other site 393595002394 Mg++ binding site [ion binding]; other site 393595002395 motif III; other site 393595002396 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 393595002397 nucleotide binding region [chemical binding]; other site 393595002398 ATP-binding site [chemical binding]; other site 393595002399 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 393595002400 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 393595002401 ATP binding site [chemical binding]; other site 393595002402 putative Mg++ binding site [ion binding]; other site 393595002403 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 393595002404 nucleotide binding region [chemical binding]; other site 393595002405 ATP-binding site [chemical binding]; other site 393595002406 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 393595002407 HRDC domain; Region: HRDC; pfam00570 393595002408 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 393595002409 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 393595002410 Chromate transporter; Region: Chromate_transp; pfam02417 393595002411 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 393595002412 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 393595002413 P-loop; other site 393595002414 Magnesium ion binding site [ion binding]; other site 393595002415 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 393595002416 Magnesium ion binding site [ion binding]; other site 393595002417 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 393595002418 prolyl-tRNA synthetase; Provisional; Region: PRK09194 393595002419 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 393595002420 dimer interface [polypeptide binding]; other site 393595002421 motif 1; other site 393595002422 active site 393595002423 motif 2; other site 393595002424 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 393595002425 putative deacylase active site [active] 393595002426 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 393595002427 active site 393595002428 motif 3; other site 393595002429 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 393595002430 anticodon binding site; other site 393595002431 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 393595002432 CoenzymeA binding site [chemical binding]; other site 393595002433 subunit interaction site [polypeptide binding]; other site 393595002434 PHB binding site; other site 393595002435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 393595002436 Family of unknown function (DUF490); Region: DUF490; pfam04357 393595002437 Family of unknown function (DUF490); Region: DUF490; pfam04357 393595002438 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 393595002439 Surface antigen; Region: Bac_surface_Ag; pfam01103 393595002440 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 393595002441 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595002442 active site 393595002443 phosphorylation site [posttranslational modification] 393595002444 intermolecular recognition site; other site 393595002445 dimerization interface [polypeptide binding]; other site 393595002446 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 393595002447 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595002448 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; cl00075 393595002449 ATP binding site [chemical binding]; other site 393595002450 Mg2+ binding site [ion binding]; other site 393595002451 G-X-G motif; other site 393595002452 Methyltransferase domain; Region: Methyltransf_31; pfam13847 393595002453 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 393595002454 S-adenosylmethionine binding site [chemical binding]; other site 393595002455 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 393595002456 TPR repeat; Region: TPR_11; pfam13414 393595002457 TPR motif; other site 393595002458 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 393595002459 IHF dimer interface [polypeptide binding]; other site 393595002460 IHF - DNA interface [nucleotide binding]; other site 393595002461 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 393595002462 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 393595002463 dimer interface [polypeptide binding]; other site 393595002464 anticodon binding site; other site 393595002465 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 393595002466 homodimer interface [polypeptide binding]; other site 393595002467 motif 1; other site 393595002468 active site 393595002469 motif 2; other site 393595002470 GAD domain; Region: GAD; pfam02938 393595002471 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 393595002472 active site 393595002473 motif 3; other site 393595002474 hypothetical protein; Validated; Region: PRK00110 393595002475 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 393595002476 active site 393595002477 putative DNA-binding cleft [nucleotide binding]; other site 393595002478 dimer interface [polypeptide binding]; other site 393595002479 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 393595002480 RuvA N terminal domain; Region: RuvA_N; pfam01330 393595002481 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 393595002482 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 393595002483 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 393595002484 Walker A motif; other site 393595002485 ATP binding site [chemical binding]; other site 393595002486 Walker B motif; other site 393595002487 arginine finger; other site 393595002488 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 393595002489 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 393595002490 active site 393595002491 TolQ protein; Region: tolQ; TIGR02796 393595002492 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 393595002493 TolR protein; Region: tolR; TIGR02801 393595002494 TolA protein; Region: tolA_full; TIGR02794 393595002495 TonB C terminal; Region: TonB_2; pfam13103 393595002496 translocation protein TolB; Provisional; Region: tolB; PRK00178 393595002497 TolB amino-terminal domain; Region: TolB_N; pfam04052 393595002498 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 393595002499 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 393595002500 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 393595002501 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 393595002502 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 393595002503 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 393595002504 ligand binding site [chemical binding]; other site 393595002505 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 393595002506 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 393595002507 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 393595002508 FeS/SAM binding site; other site 393595002509 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 393595002510 Ligand Binding Site [chemical binding]; other site 393595002511 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 393595002512 Protein of unknown function (DUF523); Region: DUF523; pfam04463 393595002513 Uncharacterized conserved protein [Function unknown]; Region: COG3272 393595002514 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 393595002515 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 393595002516 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 393595002517 DNA binding residues [nucleotide binding] 393595002518 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 393595002519 DNA photolyase; Region: DNA_photolyase; pfam00875 393595002520 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 393595002521 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 393595002522 Protein of unknown function (DUF1365); Region: DUF1365; cl17838 393595002523 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 393595002524 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 393595002525 S-adenosylmethionine binding site [chemical binding]; other site 393595002526 quinolinate synthetase; Provisional; Region: PRK09375 393595002527 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 393595002528 Peptidase family M48; Region: Peptidase_M48; pfam01435 393595002529 Tetratricopeptide repeat; Region: TPR_6; pfam13174 393595002530 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 393595002531 CPxP motif; other site 393595002532 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 393595002533 Domain of unknown function DUF20; Region: UPF0118; pfam01594 393595002534 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 393595002535 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 393595002536 catalytic triad [active] 393595002537 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 393595002538 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 393595002539 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 393595002540 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 393595002541 dihydrodipicolinate synthase; Region: dapA; TIGR00674 393595002542 dimer interface [polypeptide binding]; other site 393595002543 active site 393595002544 catalytic residue [active] 393595002545 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 393595002546 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 393595002547 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 393595002548 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 393595002549 ATP binding site [chemical binding]; other site 393595002550 active site 393595002551 substrate binding site [chemical binding]; other site 393595002552 Transcriptional regulators [Transcription]; Region: GntR; COG1802 393595002553 FCD domain; Region: FCD; pfam07729 393595002554 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 393595002555 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 393595002556 substrate binding pocket [chemical binding]; other site 393595002557 membrane-bound complex binding site; other site 393595002558 hinge residues; other site 393595002559 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 393595002560 N-acetyl-D-glucosamine binding site [chemical binding]; other site 393595002561 catalytic residue [active] 393595002562 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 393595002563 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 393595002564 dimerization interface [polypeptide binding]; other site 393595002565 ATP binding site [chemical binding]; other site 393595002566 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 393595002567 dimerization interface [polypeptide binding]; other site 393595002568 ATP binding site [chemical binding]; other site 393595002569 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 393595002570 putative active site [active] 393595002571 catalytic triad [active] 393595002572 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 393595002573 CoenzymeA binding site [chemical binding]; other site 393595002574 subunit interaction site [polypeptide binding]; other site 393595002575 PHB binding site; other site 393595002576 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 393595002577 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 393595002578 nudix motif; other site 393595002579 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 393595002580 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 393595002581 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 393595002582 DNA binding residues [nucleotide binding] 393595002583 dimerization interface [polypeptide binding]; other site 393595002584 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 393595002585 putative active site [active] 393595002586 putative CoA binding site [chemical binding]; other site 393595002587 nudix motif; other site 393595002588 metal binding site [ion binding]; metal-binding site 393595002589 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 393595002590 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 393595002591 trimer interface [polypeptide binding]; other site 393595002592 putative metal binding site [ion binding]; other site 393595002593 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 393595002594 hypothetical protein; Provisional; Region: PRK10279 393595002595 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 393595002596 active site 393595002597 nucleophile elbow; other site 393595002598 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 393595002599 Domain of unknown function DUF21; Region: DUF21; pfam01595 393595002600 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 393595002601 Transporter associated domain; Region: CorC_HlyC; smart01091 393595002602 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 393595002603 signal recognition particle protein; Provisional; Region: PRK10867 393595002604 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 393595002605 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 393595002606 P loop; other site 393595002607 GTP binding site [chemical binding]; other site 393595002608 Signal peptide binding domain; Region: SRP_SPB; pfam02978 393595002609 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 393595002610 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 393595002611 RimM N-terminal domain; Region: RimM; pfam01782 393595002612 PRC-barrel domain; Region: PRC; pfam05239 393595002613 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 393595002614 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 393595002615 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 393595002616 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 393595002617 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 393595002618 active site 393595002619 Int/Topo IB signature motif; other site 393595002620 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 393595002621 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 393595002622 dimerization domain [polypeptide binding]; other site 393595002623 dimer interface [polypeptide binding]; other site 393595002624 catalytic residues [active] 393595002625 aminotransferase; Validated; Region: PRK08175 393595002626 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 393595002627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595002628 homodimer interface [polypeptide binding]; other site 393595002629 catalytic residue [active] 393595002630 homoserine dehydrogenase; Provisional; Region: PRK06349 393595002631 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 393595002632 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 393595002633 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 393595002634 threonine synthase; Reviewed; Region: PRK06721 393595002635 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 393595002636 homodimer interface [polypeptide binding]; other site 393595002637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595002638 catalytic residue [active] 393595002639 BCCT family transporter; Region: BCCT; pfam02028 393595002640 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 393595002641 Beta-lactamase; Region: Beta-lactamase; pfam00144 393595002642 Protein of unknown function (DUF962); Region: DUF962; pfam06127 393595002643 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 393595002644 heme-binding site [chemical binding]; other site 393595002645 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 393595002646 CoA-transferase family III; Region: CoA_transf_3; pfam02515 393595002647 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 393595002648 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 393595002649 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 393595002650 Predicted methyltransferase [General function prediction only]; Region: COG3897 393595002651 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 393595002652 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 393595002653 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 393595002654 protein binding site [polypeptide binding]; other site 393595002655 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 393595002656 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 393595002657 catalytic residues [active] 393595002658 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR3; cd08275 393595002659 Enoylreductase; Region: PKS_ER; smart00829 393595002660 putative NAD(P) binding site [chemical binding]; other site 393595002661 Predicted membrane protein [Function unknown]; Region: COG2259 393595002662 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 393595002663 TM2 domain; Region: TM2; cl00984 393595002664 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 393595002665 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 393595002666 NAD binding site [chemical binding]; other site 393595002667 ATP-grasp domain; Region: ATP-grasp; pfam02222 393595002668 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 393595002669 nucleoside/Zn binding site; other site 393595002670 dimer interface [polypeptide binding]; other site 393595002671 catalytic motif [active] 393595002672 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 393595002673 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 393595002674 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 393595002675 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 393595002676 ligand binding site [chemical binding]; other site 393595002677 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 393595002678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 393595002679 metal binding site [ion binding]; metal-binding site 393595002680 active site 393595002681 I-site; other site 393595002682 SnoaL-like domain; Region: SnoaL_2; pfam12680 393595002683 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 393595002684 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 393595002685 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 393595002686 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 393595002687 S-adenosylmethionine binding site [chemical binding]; other site 393595002688 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595002689 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 393595002690 dimer interface [polypeptide binding]; other site 393595002691 phosphorylation site [posttranslational modification] 393595002692 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 393595002693 ATP binding site [chemical binding]; other site 393595002694 Mg2+ binding site [ion binding]; other site 393595002695 G-X-G motif; other site 393595002696 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 393595002697 I-site; other site 393595002698 active site 393595002699 metal binding site [ion binding]; metal-binding site 393595002700 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 393595002701 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595002702 active site 393595002703 phosphorylation site [posttranslational modification] 393595002704 intermolecular recognition site; other site 393595002705 dimerization interface [polypeptide binding]; other site 393595002706 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 393595002707 DNA binding site [nucleotide binding] 393595002708 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 393595002709 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 393595002710 conserved cys residue [active] 393595002711 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595002712 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595002713 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 393595002714 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 393595002715 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595002716 active site 393595002717 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 393595002718 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 393595002719 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 393595002720 dimer interface [polypeptide binding]; other site 393595002721 active site 393595002722 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 393595002723 active site 1 [active] 393595002724 dimer interface [polypeptide binding]; other site 393595002725 active site 2 [active] 393595002726 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 393595002727 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 393595002728 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 393595002729 catalytic residues [active] 393595002730 central insert; other site 393595002731 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 393595002732 TPR repeat; Region: TPR_11; pfam13414 393595002733 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 393595002734 binding surface 393595002735 TPR motif; other site 393595002736 adenylate kinase; Reviewed; Region: adk; PRK00279 393595002737 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 393595002738 AMP-binding site [chemical binding]; other site 393595002739 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 393595002740 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 393595002741 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 393595002742 heme binding site [chemical binding]; other site 393595002743 ferroxidase pore; other site 393595002744 ferroxidase diiron center [ion binding]; other site 393595002745 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 393595002746 oxaloacetate decarboxylase; Provisional; Region: PRK14040 393595002747 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 393595002748 active site 393595002749 catalytic residues [active] 393595002750 metal binding site [ion binding]; metal-binding site 393595002751 homodimer binding site [polypeptide binding]; other site 393595002752 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 393595002753 carboxyltransferase (CT) interaction site; other site 393595002754 biotinylation site [posttranslational modification]; other site 393595002755 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 393595002756 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 393595002757 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 393595002758 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 393595002759 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 393595002760 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 393595002761 putative substrate translocation pore; other site 393595002762 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 393595002763 NMT1-like family; Region: NMT1_2; pfam13379 393595002764 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 393595002765 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 393595002766 dimer interface [polypeptide binding]; other site 393595002767 conserved gate region; other site 393595002768 putative PBP binding loops; other site 393595002769 ABC-ATPase subunit interface; other site 393595002770 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 393595002771 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 393595002772 Walker A/P-loop; other site 393595002773 ATP binding site [chemical binding]; other site 393595002774 Q-loop/lid; other site 393595002775 ABC transporter signature motif; other site 393595002776 Walker B; other site 393595002777 D-loop; other site 393595002778 H-loop/switch region; other site 393595002779 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 393595002780 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 393595002781 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 393595002782 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 393595002783 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 393595002784 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 393595002785 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 393595002786 heme-binding site [chemical binding]; other site 393595002787 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 393595002788 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595002789 active site 393595002790 phosphorylation site [posttranslational modification] 393595002791 intermolecular recognition site; other site 393595002792 ANTAR domain; Region: ANTAR; pfam03861 393595002793 NMT1-like family; Region: NMT1_2; pfam13379 393595002794 NMT1/THI5 like; Region: NMT1; pfam09084 393595002795 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 393595002796 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 393595002797 THF binding site; other site 393595002798 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 393595002799 substrate binding site [chemical binding]; other site 393595002800 THF binding site; other site 393595002801 zinc-binding site [ion binding]; other site 393595002802 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 393595002803 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595002804 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 393595002805 putative dimerization interface [polypeptide binding]; other site 393595002806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 393595002807 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 393595002808 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 393595002809 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 393595002810 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 393595002811 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 393595002812 putative active site [active] 393595002813 putative metal binding residues [ion binding]; other site 393595002814 signature motif; other site 393595002815 putative dimer interface [polypeptide binding]; other site 393595002816 putative phosphate binding site [ion binding]; other site 393595002817 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 393595002818 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 393595002819 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 393595002820 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 393595002821 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 393595002822 Walker A/P-loop; other site 393595002823 ATP binding site [chemical binding]; other site 393595002824 Q-loop/lid; other site 393595002825 ABC transporter signature motif; other site 393595002826 Walker B; other site 393595002827 D-loop; other site 393595002828 H-loop/switch region; other site 393595002829 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmB; COG2386 393595002830 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 393595002831 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 393595002832 CcmE; Region: CcmE; pfam03100 393595002833 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 393595002834 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 393595002835 ATP-grasp domain; Region: ATP-grasp_4; cl17255 393595002836 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 393595002837 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 393595002838 C-terminal domain interface [polypeptide binding]; other site 393595002839 GSH binding site (G-site) [chemical binding]; other site 393595002840 dimer interface [polypeptide binding]; other site 393595002841 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 393595002842 substrate binding pocket (H-site) [chemical binding]; other site 393595002843 N-terminal domain interface [polypeptide binding]; other site 393595002844 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 393595002845 catalytic core [active] 393595002846 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 393595002847 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 393595002848 Walker A/P-loop; other site 393595002849 ATP binding site [chemical binding]; other site 393595002850 Q-loop/lid; other site 393595002851 ABC transporter signature motif; other site 393595002852 Walker B; other site 393595002853 D-loop; other site 393595002854 H-loop/switch region; other site 393595002855 inner membrane transport permease; Provisional; Region: PRK15066 393595002856 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 393595002857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 393595002858 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 393595002859 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 393595002860 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 393595002861 MAPEG family; Region: MAPEG; pfam01124 393595002862 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 393595002863 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 393595002864 putative FMN binding site [chemical binding]; other site 393595002865 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 393595002866 MASE2 domain; Region: MASE2; pfam05230 393595002867 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 393595002868 cyclase homology domain; Region: CHD; cd07302 393595002869 nucleotidyl binding site; other site 393595002870 metal binding site [ion binding]; metal-binding site 393595002871 dimer interface [polypeptide binding]; other site 393595002872 choline dehydrogenase; Validated; Region: PRK02106 393595002873 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 393595002874 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 393595002875 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 393595002876 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 393595002877 active site 393595002878 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 393595002879 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 393595002880 putative active site [active] 393595002881 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 393595002882 Tetratricopeptide repeat; Region: TPR_15; pfam13429 393595002883 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 393595002884 GAF domain; Region: GAF_3; pfam13492 393595002885 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_3; cd03813 393595002886 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 393595002887 Predicted membrane protein [Function unknown]; Region: COG4267 393595002888 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 393595002889 MG2 domain; Region: A2M_N; pfam01835 393595002890 Alpha-2-macroglobulin family; Region: A2M; pfam00207 393595002891 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 393595002892 surface patch; other site 393595002893 thioester region; other site 393595002894 specificity defining residues; other site 393595002895 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 393595002896 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 393595002897 Transglycosylase; Region: Transgly; pfam00912 393595002898 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 393595002899 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 393595002900 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 393595002901 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 393595002902 putative [Fe4-S4] binding site [ion binding]; other site 393595002903 putative molybdopterin cofactor binding site [chemical binding]; other site 393595002904 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 393595002905 molybdopterin cofactor binding site; other site 393595002906 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 393595002907 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 393595002908 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 393595002909 NADH(P)-binding; Region: NAD_binding_10; pfam13460 393595002910 NAD(P) binding site [chemical binding]; other site 393595002911 putative active site [active] 393595002912 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 393595002913 polysaccharide export protein Wza; Provisional; Region: PRK15078 393595002914 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 393595002915 SLBB domain; Region: SLBB; pfam10531 393595002916 Low molecular weight phosphatase family; Region: LMWPc; cl00105 393595002917 tyrosine kinase; Provisional; Region: PRK11519 393595002918 Chain length determinant protein; Region: Wzz; pfam02706 393595002919 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 393595002920 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 393595002921 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 393595002922 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 393595002923 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 393595002924 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 393595002925 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 393595002926 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 393595002927 NAD binding site [chemical binding]; other site 393595002928 substrate binding site [chemical binding]; other site 393595002929 homodimer interface [polypeptide binding]; other site 393595002930 active site 393595002931 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 393595002932 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 393595002933 NAD binding site [chemical binding]; other site 393595002934 substrate binding site [chemical binding]; other site 393595002935 homodimer interface [polypeptide binding]; other site 393595002936 active site 393595002937 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 393595002938 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 393595002939 NADP binding site [chemical binding]; other site 393595002940 active site 393595002941 putative substrate binding site [chemical binding]; other site 393595002942 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 393595002943 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 393595002944 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 393595002945 substrate binding site; other site 393595002946 tetramer interface; other site 393595002947 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 393595002948 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 393595002949 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 393595002950 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 393595002951 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 393595002952 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 393595002953 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 393595002954 Probable Catalytic site; other site 393595002955 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 393595002956 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 393595002957 putative ADP-binding pocket [chemical binding]; other site 393595002958 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 393595002959 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 393595002960 putative ADP-binding pocket [chemical binding]; other site 393595002961 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 393595002962 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 393595002963 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 393595002964 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 393595002965 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 393595002966 putative ADP-binding pocket [chemical binding]; other site 393595002967 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 393595002968 Bacterial sugar transferase; Region: Bac_transf; pfam02397 393595002969 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 393595002970 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 393595002971 putative trimer interface [polypeptide binding]; other site 393595002972 putative CoA binding site [chemical binding]; other site 393595002973 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 393595002974 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 393595002975 inhibitor-cofactor binding pocket; inhibition site 393595002976 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595002977 catalytic residue [active] 393595002978 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 393595002979 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 393595002980 NAD(P) binding site [chemical binding]; other site 393595002981 homodimer interface [polypeptide binding]; other site 393595002982 substrate binding site [chemical binding]; other site 393595002983 active site 393595002984 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 393595002985 transmembrane helices; other site 393595002986 TrkA-C domain; Region: TrkA_C; pfam02080 393595002987 TrkA-C domain; Region: TrkA_C; pfam02080 393595002988 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 393595002989 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 393595002990 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 393595002991 ligand-binding site [chemical binding]; other site 393595002992 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 393595002993 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 393595002994 Beta-Casp domain; Region: Beta-Casp; smart01027 393595002995 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 393595002996 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 393595002997 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 393595002998 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 393595002999 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 393595003000 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 393595003001 active site 393595003002 tetramer interface; other site 393595003003 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 393595003004 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 393595003005 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 393595003006 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 393595003007 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 393595003008 active site 393595003009 dimer interface [polypeptide binding]; other site 393595003010 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 393595003011 dimer interface [polypeptide binding]; other site 393595003012 active site 393595003013 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 393595003014 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 393595003015 active site 393595003016 substrate binding site [chemical binding]; other site 393595003017 metal binding site [ion binding]; metal-binding site 393595003018 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 393595003019 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 393595003020 NAD binding site [chemical binding]; other site 393595003021 homodimer interface [polypeptide binding]; other site 393595003022 active site 393595003023 substrate binding site [chemical binding]; other site 393595003024 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 393595003025 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 393595003026 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 393595003027 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 393595003028 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 393595003029 active site 393595003030 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 393595003031 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 393595003032 active site 393595003033 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 393595003034 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 393595003035 Bacterial sugar transferase; Region: Bac_transf; pfam02397 393595003036 aspartate aminotransferase; Provisional; Region: PRK05764 393595003037 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 393595003038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595003039 homodimer interface [polypeptide binding]; other site 393595003040 catalytic residue [active] 393595003041 excinuclease ABC subunit B; Provisional; Region: PRK05298 393595003042 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 393595003043 ATP binding site [chemical binding]; other site 393595003044 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 393595003045 nucleotide binding region [chemical binding]; other site 393595003046 ATP-binding site [chemical binding]; other site 393595003047 Ultra-violet resistance protein B; Region: UvrB; pfam12344 393595003048 UvrB/uvrC motif; Region: UVR; pfam02151 393595003049 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 393595003050 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 393595003051 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 393595003052 Walker A/P-loop; other site 393595003053 ATP binding site [chemical binding]; other site 393595003054 Q-loop/lid; other site 393595003055 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 393595003056 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 393595003057 ABC transporter signature motif; other site 393595003058 Walker B; other site 393595003059 D-loop; other site 393595003060 H-loop/switch region; other site 393595003061 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 393595003062 FtsZ protein binding site [polypeptide binding]; other site 393595003063 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 393595003064 DNA ligase, NAD-dependent; Region: dnlj; TIGR00575 393595003065 nucleotide binding pocket [chemical binding]; other site 393595003066 K-X-D-G motif; other site 393595003067 catalytic site [active] 393595003068 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 393595003069 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 393595003070 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 393595003071 N-acetyl-D-glucosamine binding site [chemical binding]; other site 393595003072 catalytic residue [active] 393595003073 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 393595003074 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 393595003075 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 393595003076 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 393595003077 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 393595003078 NAD binding site [chemical binding]; other site 393595003079 homodimer interface [polypeptide binding]; other site 393595003080 active site 393595003081 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 393595003082 putative active site [active] 393595003083 putative catalytic site [active] 393595003084 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 393595003085 catalytic core [active] 393595003086 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 393595003087 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 393595003088 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595003089 active site 393595003090 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 393595003091 Phosphotransferase enzyme family; Region: APH; pfam01636 393595003092 putative active site [active] 393595003093 putative substrate binding site [chemical binding]; other site 393595003094 ATP binding site [chemical binding]; other site 393595003095 short chain dehydrogenase; Provisional; Region: PRK07035 393595003096 classical (c) SDRs; Region: SDR_c; cd05233 393595003097 NAD(P) binding site [chemical binding]; other site 393595003098 active site 393595003099 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 393595003100 classical (c) SDRs; Region: SDR_c; cd05233 393595003101 NAD(P) binding site [chemical binding]; other site 393595003102 active site 393595003103 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 393595003104 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 393595003105 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 393595003106 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 393595003107 NAD binding site [chemical binding]; other site 393595003108 catalytic residues [active] 393595003109 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 393595003110 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 393595003111 Protein export membrane protein; Region: SecD_SecF; cl14618 393595003112 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 393595003113 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 393595003114 HlyD family secretion protein; Region: HlyD_3; pfam13437 393595003115 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 393595003116 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595003117 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 393595003118 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 393595003119 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 393595003120 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 393595003121 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 393595003122 MAPEG family; Region: MAPEG; cl09190 393595003123 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 393595003124 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 393595003125 dimer interface [polypeptide binding]; other site 393595003126 phosphorylation site [posttranslational modification] 393595003127 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 393595003128 ATP binding site [chemical binding]; other site 393595003129 Mg2+ binding site [ion binding]; other site 393595003130 G-X-G motif; other site 393595003131 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 393595003132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595003133 active site 393595003134 phosphorylation site [posttranslational modification] 393595003135 intermolecular recognition site; other site 393595003136 dimerization interface [polypeptide binding]; other site 393595003137 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 393595003138 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 393595003139 S-adenosylmethionine binding site [chemical binding]; other site 393595003140 SCP-2 sterol transfer family; Region: SCP2; pfam02036 393595003141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 393595003142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 393595003143 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 393595003144 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 393595003145 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 393595003146 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 393595003147 NAD(P) binding site [chemical binding]; other site 393595003148 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 393595003149 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 393595003150 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 393595003151 dimer interface [polypeptide binding]; other site 393595003152 active site 393595003153 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 393595003154 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 393595003155 FAD binding site [chemical binding]; other site 393595003156 substrate binding pocket [chemical binding]; other site 393595003157 catalytic base [active] 393595003158 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 393595003159 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 393595003160 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 393595003161 acyl-activating enzyme (AAE) consensus motif; other site 393595003162 putative AMP binding site [chemical binding]; other site 393595003163 putative active site [active] 393595003164 putative CoA binding site [chemical binding]; other site 393595003165 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 393595003166 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 393595003167 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 393595003168 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 393595003169 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 393595003170 carboxyltransferase (CT) interaction site; other site 393595003171 biotinylation site [posttranslational modification]; other site 393595003172 enoyl-CoA hydratase; Provisional; Region: PRK05995 393595003173 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 393595003174 substrate binding site [chemical binding]; other site 393595003175 oxyanion hole (OAH) forming residues; other site 393595003176 trimer interface [polypeptide binding]; other site 393595003177 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 393595003178 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595003179 active site 393595003180 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 393595003181 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 393595003182 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 393595003183 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 393595003184 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 393595003185 NAD(P) binding site [chemical binding]; other site 393595003186 substrate binding site [chemical binding]; other site 393595003187 homotetramer interface [polypeptide binding]; other site 393595003188 active site 393595003189 homodimer interface [polypeptide binding]; other site 393595003190 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 393595003191 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595003192 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595003193 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 393595003194 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 393595003195 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 393595003196 ligand binding site [chemical binding]; other site 393595003197 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 393595003198 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 393595003199 ligand binding site [chemical binding]; other site 393595003200 flexible hinge region; other site 393595003201 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 393595003202 active site residue [active] 393595003203 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 393595003204 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 393595003205 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 393595003206 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 393595003207 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 393595003208 aminopeptidase N; Provisional; Region: pepN; PRK14015 393595003209 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 393595003210 active site 393595003211 Zn binding site [ion binding]; other site 393595003212 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 393595003213 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 393595003214 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 393595003215 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 393595003216 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 393595003217 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 393595003218 quinone interaction residues [chemical binding]; other site 393595003219 active site 393595003220 catalytic residues [active] 393595003221 FMN binding site [chemical binding]; other site 393595003222 substrate binding site [chemical binding]; other site 393595003223 Ribosome modulation factor; Region: RMF; pfam04957 393595003224 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 393595003225 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 393595003226 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 393595003227 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 393595003228 S-adenosylmethionine binding site [chemical binding]; other site 393595003229 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 393595003230 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 393595003231 active site 393595003232 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 393595003233 LexA repressor; Validated; Region: PRK00215 393595003234 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 393595003235 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 393595003236 Catalytic site [active] 393595003237 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 393595003238 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 393595003239 ligand binding site [chemical binding]; other site 393595003240 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 393595003241 Ligand Binding Site [chemical binding]; other site 393595003242 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 393595003243 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 393595003244 active site 393595003245 interdomain interaction site; other site 393595003246 putative metal-binding site [ion binding]; other site 393595003247 nucleotide binding site [chemical binding]; other site 393595003248 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 393595003249 domain I; other site 393595003250 DNA binding groove [nucleotide binding] 393595003251 phosphate binding site [ion binding]; other site 393595003252 domain II; other site 393595003253 domain III; other site 393595003254 nucleotide binding site [chemical binding]; other site 393595003255 catalytic site [active] 393595003256 domain IV; other site 393595003257 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 393595003258 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 393595003259 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 393595003260 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 393595003261 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595003262 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595003263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 393595003264 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 393595003265 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 393595003266 beta-hexosaminidase; Provisional; Region: PRK05337 393595003267 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 393595003268 Mechanosensitive ion channel; Region: MS_channel; pfam00924 393595003269 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 393595003270 active site 393595003271 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 393595003272 Domain of unknown function DUF21; Region: DUF21; pfam01595 393595003273 FOG: CBS domain [General function prediction only]; Region: COG0517 393595003274 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 393595003275 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 393595003276 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 393595003277 dimer interface [polypeptide binding]; other site 393595003278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595003279 catalytic residue [active] 393595003280 Predicted flavoproteins [General function prediction only]; Region: COG2081 393595003281 hydroxyglutarate oxidase; Provisional; Region: PRK11728 393595003282 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 393595003283 active site 393595003284 short chain dehydrogenase; Provisional; Region: PRK06197 393595003285 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 393595003286 putative NAD(P) binding site [chemical binding]; other site 393595003287 active site 393595003288 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 393595003289 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 393595003290 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 393595003291 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 393595003292 ATP binding site [chemical binding]; other site 393595003293 putative Mg++ binding site [ion binding]; other site 393595003294 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 393595003295 nucleotide binding region [chemical binding]; other site 393595003296 ATP-binding site [chemical binding]; other site 393595003297 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 393595003298 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 393595003299 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 393595003300 active site 393595003301 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 393595003302 catalytic triad [active] 393595003303 dimer interface [polypeptide binding]; other site 393595003304 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 393595003305 putative uracil binding site [chemical binding]; other site 393595003306 putative active site [active] 393595003307 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 393595003308 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 393595003309 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 393595003310 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 393595003311 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 393595003312 E3 interaction surface; other site 393595003313 lipoyl attachment site [posttranslational modification]; other site 393595003314 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 393595003315 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 393595003316 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 393595003317 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 393595003318 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 393595003319 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 393595003320 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 393595003321 catalytic loop [active] 393595003322 iron binding site [ion binding]; other site 393595003323 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 393595003324 FAD binding pocket [chemical binding]; other site 393595003325 FAD binding motif [chemical binding]; other site 393595003326 phosphate binding motif [ion binding]; other site 393595003327 beta-alpha-beta structure motif; other site 393595003328 NAD binding pocket [chemical binding]; other site 393595003329 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 393595003330 ApbE family; Region: ApbE; pfam02424 393595003331 Protein of unknown function (DUF539); Region: DUF539; cl01129 393595003332 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 393595003333 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 393595003334 Coenzyme A binding pocket [chemical binding]; other site 393595003335 Peptidase_C39 like family; Region: DUF3335; pfam11814 393595003336 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 393595003337 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 393595003338 active site 393595003339 nucleophile elbow; other site 393595003340 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 393595003341 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 393595003342 active site 393595003343 catalytic site [active] 393595003344 metal binding site [ion binding]; metal-binding site 393595003345 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 393595003346 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 393595003347 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 393595003348 putative active site [active] 393595003349 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 393595003350 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 393595003351 putative active site; other site 393595003352 catalytic triad [active] 393595003353 putative dimer interface [polypeptide binding]; other site 393595003354 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 393595003355 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 393595003356 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 393595003357 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 393595003358 FtsX-like permease family; Region: FtsX; pfam02687 393595003359 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 393595003360 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 393595003361 Walker A/P-loop; other site 393595003362 ATP binding site [chemical binding]; other site 393595003363 Q-loop/lid; other site 393595003364 ABC transporter signature motif; other site 393595003365 Walker B; other site 393595003366 D-loop; other site 393595003367 H-loop/switch region; other site 393595003368 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 393595003369 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 393595003370 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 393595003371 Competence protein; Region: Competence; pfam03772 393595003372 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 393595003373 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 393595003374 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 393595003375 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 393595003376 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 393595003377 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 393595003378 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 393595003379 Walker A/P-loop; other site 393595003380 ATP binding site [chemical binding]; other site 393595003381 Q-loop/lid; other site 393595003382 ABC transporter signature motif; other site 393595003383 Walker B; other site 393595003384 D-loop; other site 393595003385 H-loop/switch region; other site 393595003386 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 393595003387 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 393595003388 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 393595003389 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 393595003390 Ligand binding site; other site 393595003391 oligomer interface; other site 393595003392 Low molecular weight phosphatase family; Region: LMWPc; cd00115 393595003393 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 393595003394 active site 393595003395 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 393595003396 FAD binding domain; Region: FAD_binding_4; pfam01565 393595003397 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 393595003398 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 393595003399 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 393595003400 homodimer interface [polypeptide binding]; other site 393595003401 oligonucleotide binding site [chemical binding]; other site 393595003402 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 393595003403 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 393595003404 RNA binding surface [nucleotide binding]; other site 393595003405 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 393595003406 active site 393595003407 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 393595003408 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 393595003409 motif II; other site 393595003410 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 393595003411 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 393595003412 tandem repeat interface [polypeptide binding]; other site 393595003413 oligomer interface [polypeptide binding]; other site 393595003414 active site residues [active] 393595003415 Maf-like protein; Region: Maf; pfam02545 393595003416 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 393595003417 active site 393595003418 dimer interface [polypeptide binding]; other site 393595003419 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 393595003420 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 393595003421 putative phosphate acyltransferase; Provisional; Region: PRK05331 393595003422 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 393595003423 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 393595003424 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 393595003425 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 393595003426 NAD(P) binding site [chemical binding]; other site 393595003427 homotetramer interface [polypeptide binding]; other site 393595003428 homodimer interface [polypeptide binding]; other site 393595003429 active site 393595003430 acyl carrier protein; Provisional; Region: acpP; PRK00982 393595003431 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 393595003432 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 393595003433 dimer interface [polypeptide binding]; other site 393595003434 active site 393595003435 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 393595003436 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 393595003437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595003438 catalytic residue [active] 393595003439 YceG-like family; Region: YceG; pfam02618 393595003440 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 393595003441 dimerization interface [polypeptide binding]; other site 393595003442 thymidylate kinase; Validated; Region: tmk; PRK00698 393595003443 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 393595003444 TMP-binding site; other site 393595003445 ATP-binding site [chemical binding]; other site 393595003446 DNA polymerase III subunit delta'; Validated; Region: PRK05707 393595003447 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 393595003448 Walker A motif; other site 393595003449 ATP binding site [chemical binding]; other site 393595003450 Walker B motif; other site 393595003451 arginine finger; other site 393595003452 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 393595003453 PilZ domain; Region: PilZ; cl01260 393595003454 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 393595003455 active site 393595003456 RmuC family; Region: RmuC; pfam02646 393595003457 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cd00190 393595003458 cleavage site 393595003459 active site 393595003460 substrate binding sites [chemical binding]; other site 393595003461 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 393595003462 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 393595003463 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 393595003464 catalytic residue [active] 393595003465 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595003466 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595003467 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 393595003468 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 393595003469 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 393595003470 Catalytic domain of Protein Kinases; Region: PKc; cd00180 393595003471 active site 393595003472 ATP binding site [chemical binding]; other site 393595003473 substrate binding site [chemical binding]; other site 393595003474 activation loop (A-loop); other site 393595003475 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 393595003476 putative substrate translocation pore; other site 393595003477 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 393595003478 nitrite reductase subunit NirD; Provisional; Region: PRK14989 393595003479 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 393595003480 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 393595003481 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 393595003482 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 393595003483 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 393595003484 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 393595003485 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 393595003486 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 393595003487 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 393595003488 [4Fe-4S] binding site [ion binding]; other site 393595003489 molybdopterin cofactor binding site; other site 393595003490 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 393595003491 molybdopterin cofactor binding site; other site 393595003492 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 393595003493 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 393595003494 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 393595003495 putative catalytic residues [active] 393595003496 Ion transport protein; Region: Ion_trans; pfam00520 393595003497 Ion channel; Region: Ion_trans_2; pfam07885 393595003498 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 393595003499 Double zinc ribbon; Region: DZR; pfam12773 393595003500 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 393595003501 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 393595003502 NAD-dependent deacetylase; Provisional; Region: PRK00481 393595003503 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 393595003504 NAD+ binding site [chemical binding]; other site 393595003505 substrate binding site [chemical binding]; other site 393595003506 Zn binding site [ion binding]; other site 393595003507 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 393595003508 Predicted amidohydrolase [General function prediction only]; Region: COG0388 393595003509 putative active site [active] 393595003510 catalytic triad [active] 393595003511 putative dimer interface [polypeptide binding]; other site 393595003512 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 393595003513 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 393595003514 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 393595003515 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 393595003516 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 393595003517 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 393595003518 active site 393595003519 uracil binding [chemical binding]; other site 393595003520 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595003521 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 393595003522 dimerization interface [polypeptide binding]; other site 393595003523 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 393595003524 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 393595003525 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 393595003526 Ligand binding site [chemical binding]; other site 393595003527 Electron transfer flavoprotein domain; Region: ETF; pfam01012 393595003528 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 393595003529 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 393595003530 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 393595003531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 393595003532 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 393595003533 NAD(P) binding site [chemical binding]; other site 393595003534 active site 393595003535 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 393595003536 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 393595003537 Uncharacterized conserved protein [Function unknown]; Region: COG2308 393595003538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 393595003539 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 393595003540 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 393595003541 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 393595003542 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 393595003543 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 393595003544 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 393595003545 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 393595003546 Sulfatase; Region: Sulfatase; pfam00884 393595003547 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 393595003548 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 393595003549 active site 393595003550 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 393595003551 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 393595003552 putative acyl-acceptor binding pocket; other site 393595003553 GAF domain; Region: GAF_2; pfam13185 393595003554 GAF domain; Region: GAF_3; pfam13492 393595003555 Acyl CoA binding protein; Region: ACBP; pfam00887 393595003556 acyl-CoA binding pocket [chemical binding]; other site 393595003557 CoA binding site [chemical binding]; other site 393595003558 EamA-like transporter family; Region: EamA; pfam00892 393595003559 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 393595003560 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 393595003561 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 393595003562 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 393595003563 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 393595003564 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 393595003565 Switch I; other site 393595003566 Switch II; other site 393595003567 septum formation inhibitor; Reviewed; Region: minC; PRK00339 393595003568 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 393595003569 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 393595003570 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 393595003571 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595003572 active site 393595003573 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 393595003574 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 393595003575 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 393595003576 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 393595003577 Nitrogen regulatory protein P-II; Region: P-II; smart00938 393595003578 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 393595003579 SCP-2 sterol transfer family; Region: SCP2; cl01225 393595003580 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 393595003581 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 393595003582 GTP binding site; other site 393595003583 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 393595003584 DEAD/DEAH box helicase; Region: DEAD; pfam00270 393595003585 ATP binding site [chemical binding]; other site 393595003586 DEAD_2; Region: DEAD_2; pfam06733 393595003587 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 393595003588 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 393595003589 Glycoprotease family; Region: Peptidase_M22; pfam00814 393595003590 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 393595003591 active site 393595003592 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 393595003593 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 393595003594 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 393595003595 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 393595003596 putative acyl-acceptor binding pocket; other site 393595003597 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 393595003598 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 393595003599 Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like; Region: ALDH_DDALDH; cd07099 393595003600 NAD(P) binding site [chemical binding]; other site 393595003601 catalytic residues [active] 393595003602 Fusaric acid resistance protein family; Region: FUSC; pfam04632 393595003603 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 393595003604 Protein of unknown function (DUF615); Region: DUF615; cl01147 393595003605 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 393595003606 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 393595003607 HlyD family secretion protein; Region: HlyD_3; pfam13437 393595003608 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 393595003609 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 393595003610 metal binding site [ion binding]; metal-binding site 393595003611 dimer interface [polypeptide binding]; other site 393595003612 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 393595003613 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 393595003614 putative trimer interface [polypeptide binding]; other site 393595003615 putative CoA binding site [chemical binding]; other site 393595003616 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 393595003617 ArsC family; Region: ArsC; pfam03960 393595003618 putative catalytic residues [active] 393595003619 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 393595003620 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 393595003621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595003622 homodimer interface [polypeptide binding]; other site 393595003623 catalytic residue [active] 393595003624 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 393595003625 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 393595003626 metal binding triad; other site 393595003627 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 393595003628 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 393595003629 Zn2+ binding site [ion binding]; other site 393595003630 Mg2+ binding site [ion binding]; other site 393595003631 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 393595003632 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 393595003633 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 393595003634 active site 393595003635 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 393595003636 rRNA interaction site [nucleotide binding]; other site 393595003637 S8 interaction site; other site 393595003638 putative laminin-1 binding site; other site 393595003639 elongation factor Ts; Provisional; Region: tsf; PRK09377 393595003640 UBA/TS-N domain; Region: UBA; pfam00627 393595003641 Elongation factor TS; Region: EF_TS; pfam00889 393595003642 Elongation factor TS; Region: EF_TS; pfam00889 393595003643 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 393595003644 putative nucleotide binding site [chemical binding]; other site 393595003645 uridine monophosphate binding site [chemical binding]; other site 393595003646 homohexameric interface [polypeptide binding]; other site 393595003647 ribosome recycling factor; Reviewed; Region: frr; PRK00083 393595003648 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 393595003649 hinge region; other site 393595003650 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 393595003651 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 393595003652 catalytic residue [active] 393595003653 putative FPP diphosphate binding site; other site 393595003654 putative FPP binding hydrophobic cleft; other site 393595003655 dimer interface [polypeptide binding]; other site 393595003656 putative IPP diphosphate binding site; other site 393595003657 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 393595003658 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 393595003659 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 393595003660 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 393595003661 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 393595003662 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 393595003663 zinc metallopeptidase RseP; Provisional; Region: PRK10779 393595003664 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 393595003665 active site 393595003666 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 393595003667 protein binding site [polypeptide binding]; other site 393595003668 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 393595003669 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 393595003670 putative substrate binding region [chemical binding]; other site 393595003671 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 393595003672 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 393595003673 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 393595003674 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 393595003675 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 393595003676 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 393595003677 Surface antigen; Region: Bac_surface_Ag; pfam01103 393595003678 periplasmic chaperone; Provisional; Region: PRK10780 393595003679 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 393595003680 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 393595003681 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 393595003682 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 393595003683 trimer interface [polypeptide binding]; other site 393595003684 active site 393595003685 UDP-GlcNAc binding site [chemical binding]; other site 393595003686 lipid binding site [chemical binding]; lipid-binding site 393595003687 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 393595003688 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 393595003689 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 393595003690 active site 393595003691 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 393595003692 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 393595003693 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 393595003694 RNA/DNA hybrid binding site [nucleotide binding]; other site 393595003695 active site 393595003696 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 393595003697 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 393595003698 putative active site [active] 393595003699 putative PHP Thumb interface [polypeptide binding]; other site 393595003700 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 393595003701 generic binding surface II; other site 393595003702 generic binding surface I; other site 393595003703 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 393595003704 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 393595003705 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 393595003706 TilS substrate binding domain; Region: TilS; pfam09179 393595003707 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 393595003708 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 393595003709 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 393595003710 ATP binding site [chemical binding]; other site 393595003711 putative Mg++ binding site [ion binding]; other site 393595003712 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 393595003713 nucleotide binding region [chemical binding]; other site 393595003714 ATP-binding site [chemical binding]; other site 393595003715 CTP synthetase; Validated; Region: pyrG; PRK05380 393595003716 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 393595003717 Catalytic site [active] 393595003718 active site 393595003719 UTP binding site [chemical binding]; other site 393595003720 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 393595003721 active site 393595003722 putative oxyanion hole; other site 393595003723 catalytic triad [active] 393595003724 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 393595003725 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 393595003726 enolase; Provisional; Region: eno; PRK00077 393595003727 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 393595003728 dimer interface [polypeptide binding]; other site 393595003729 metal binding site [ion binding]; metal-binding site 393595003730 substrate binding pocket [chemical binding]; other site 393595003731 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 393595003732 Septum formation initiator; Region: DivIC; cl17659 393595003733 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 393595003734 substrate binding site; other site 393595003735 dimer interface; other site 393595003736 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 393595003737 homotrimer interaction site [polypeptide binding]; other site 393595003738 zinc binding site [ion binding]; other site 393595003739 CDP-binding sites; other site 393595003740 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 393595003741 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 393595003742 Permutation of conserved domain; other site 393595003743 active site 393595003744 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cd01291 393595003745 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 393595003746 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 393595003747 S-adenosylmethionine binding site [chemical binding]; other site 393595003748 Domain of unknown function (DUF368); Region: DUF368; pfam04018 393595003749 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 393595003750 Peptidase family M23; Region: Peptidase_M23; pfam01551 393595003751 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 393595003752 Cation efflux family; Region: Cation_efflux; cl00316 393595003753 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 393595003754 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 393595003755 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 393595003756 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 393595003757 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 393595003758 putative active site [active] 393595003759 metal binding site [ion binding]; metal-binding site 393595003760 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 393595003761 active site 393595003762 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 393595003763 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 393595003764 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 393595003765 ligand binding site [chemical binding]; other site 393595003766 NAD binding site [chemical binding]; other site 393595003767 catalytic site [active] 393595003768 homodimer interface [polypeptide binding]; other site 393595003769 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 393595003770 heat shock protein HtpX; Provisional; Region: PRK05457 393595003771 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 393595003772 aminotransferase AlaT; Validated; Region: PRK09265 393595003773 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 393595003774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595003775 homodimer interface [polypeptide binding]; other site 393595003776 catalytic residue [active] 393595003777 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 393595003778 Cytochrome c; Region: Cytochrom_C; pfam00034 393595003779 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 393595003780 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 393595003781 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 393595003782 Cl binding site [ion binding]; other site 393595003783 oligomer interface [polypeptide binding]; other site 393595003784 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 393595003785 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 393595003786 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 393595003787 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 393595003788 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 393595003789 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 393595003790 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 393595003791 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 393595003792 Peptidase family M48; Region: Peptidase_M48; pfam01435 393595003793 ABC1 family; Region: ABC1; cl17513 393595003794 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 393595003795 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 393595003796 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 393595003797 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 393595003798 active site 393595003799 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 393595003800 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 393595003801 Walker A motif; other site 393595003802 ATP binding site [chemical binding]; other site 393595003803 Walker B motif; other site 393595003804 arginine finger; other site 393595003805 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 393595003806 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 393595003807 S-adenosylmethionine binding site [chemical binding]; other site 393595003808 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 393595003809 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 393595003810 EamA-like transporter family; Region: EamA; pfam00892 393595003811 EamA-like transporter family; Region: EamA; cl17759 393595003812 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 393595003813 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 393595003814 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 393595003815 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 393595003816 substrate binding site [chemical binding]; other site 393595003817 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 393595003818 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 393595003819 substrate binding site [chemical binding]; other site 393595003820 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 393595003821 substrate binding site [chemical binding]; other site 393595003822 ligand binding site [chemical binding]; other site 393595003823 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 393595003824 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 393595003825 putative acyl-acceptor binding pocket; other site 393595003826 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 393595003827 active site 393595003828 dinuclear metal binding site [ion binding]; other site 393595003829 dimerization interface [polypeptide binding]; other site 393595003830 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 393595003831 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 393595003832 putative active site [active] 393595003833 putative metal binding site [ion binding]; other site 393595003834 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; cl00197 393595003835 active site 393595003836 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 393595003837 substrate binding site [chemical binding]; other site 393595003838 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 393595003839 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 393595003840 active site 393595003841 HIGH motif; other site 393595003842 nucleotide binding site [chemical binding]; other site 393595003843 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 393595003844 KMSKS motif; other site 393595003845 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 393595003846 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 393595003847 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 393595003848 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 393595003849 homodimer interface [polypeptide binding]; other site 393595003850 NADP binding site [chemical binding]; other site 393595003851 substrate binding site [chemical binding]; other site 393595003852 trigger factor; Provisional; Region: tig; PRK01490 393595003853 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 393595003854 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 393595003855 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 393595003856 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 393595003857 oligomer interface [polypeptide binding]; other site 393595003858 active site residues [active] 393595003859 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 393595003860 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 393595003861 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 393595003862 Walker A motif; other site 393595003863 ATP binding site [chemical binding]; other site 393595003864 Walker B motif; other site 393595003865 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 393595003866 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 393595003867 Found in ATP-dependent protease La (LON); Region: LON; smart00464 393595003868 Found in ATP-dependent protease La (LON); Region: LON; smart00464 393595003869 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 393595003870 Walker A motif; other site 393595003871 ATP binding site [chemical binding]; other site 393595003872 Walker B motif; other site 393595003873 arginine finger; other site 393595003874 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 393595003875 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 393595003876 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 393595003877 IHF dimer interface [polypeptide binding]; other site 393595003878 IHF - DNA interface [nucleotide binding]; other site 393595003879 periplasmic folding chaperone; Provisional; Region: PRK10788 393595003880 SurA N-terminal domain; Region: SurA_N_3; cl07813 393595003881 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 393595003882 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 393595003883 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 393595003884 NAD binding site [chemical binding]; other site 393595003885 homotetramer interface [polypeptide binding]; other site 393595003886 homodimer interface [polypeptide binding]; other site 393595003887 substrate binding site [chemical binding]; other site 393595003888 active site 393595003889 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 393595003890 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 393595003891 Walker A/P-loop; other site 393595003892 ATP binding site [chemical binding]; other site 393595003893 Q-loop/lid; other site 393595003894 ABC transporter signature motif; other site 393595003895 Walker B; other site 393595003896 D-loop; other site 393595003897 H-loop/switch region; other site 393595003898 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 393595003899 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 393595003900 Walker A/P-loop; other site 393595003901 ATP binding site [chemical binding]; other site 393595003902 Q-loop/lid; other site 393595003903 ABC transporter signature motif; other site 393595003904 Walker B; other site 393595003905 D-loop; other site 393595003906 H-loop/switch region; other site 393595003907 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 393595003908 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 393595003909 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 393595003910 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 393595003911 dimer interface [polypeptide binding]; other site 393595003912 conserved gate region; other site 393595003913 putative PBP binding loops; other site 393595003914 ABC-ATPase subunit interface; other site 393595003915 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 393595003916 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 393595003917 dimer interface [polypeptide binding]; other site 393595003918 conserved gate region; other site 393595003919 putative PBP binding loops; other site 393595003920 ABC-ATPase subunit interface; other site 393595003921 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 393595003922 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 393595003923 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 393595003924 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 393595003925 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 393595003926 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 393595003927 N-acetyl-D-glucosamine binding site [chemical binding]; other site 393595003928 catalytic residue [active] 393595003929 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 393595003930 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 393595003931 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 393595003932 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 393595003933 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 393595003934 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 393595003935 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 393595003936 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 393595003937 RNA/DNA hybrid binding site [nucleotide binding]; other site 393595003938 active site 393595003939 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 393595003940 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 393595003941 active site 393595003942 catalytic site [active] 393595003943 substrate binding site [chemical binding]; other site 393595003944 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 393595003945 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 393595003946 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 393595003947 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 393595003948 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 393595003949 putative NADH binding site [chemical binding]; other site 393595003950 putative active site [active] 393595003951 nudix motif; other site 393595003952 putative metal binding site [ion binding]; other site 393595003953 putative inner membrane peptidase; Provisional; Region: PRK11778 393595003954 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 393595003955 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 393595003956 tandem repeat interface [polypeptide binding]; other site 393595003957 oligomer interface [polypeptide binding]; other site 393595003958 active site residues [active] 393595003959 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 393595003960 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 393595003961 NADP binding site [chemical binding]; other site 393595003962 dimer interface [polypeptide binding]; other site 393595003963 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 393595003964 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 393595003965 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 393595003966 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 393595003967 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 393595003968 putative metal binding site [ion binding]; other site 393595003969 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 393595003970 HSP70 interaction site [polypeptide binding]; other site 393595003971 Protein of unknown function (DUF465); Region: DUF465; pfam04325 393595003972 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 393595003973 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 393595003974 acyl-activating enzyme (AAE) consensus motif; other site 393595003975 putative AMP binding site [chemical binding]; other site 393595003976 putative active site [active] 393595003977 putative CoA binding site [chemical binding]; other site 393595003978 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 393595003979 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 393595003980 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 393595003981 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 393595003982 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 393595003983 carboxyltransferase (CT) interaction site; other site 393595003984 biotinylation site [posttranslational modification]; other site 393595003985 enoyl-CoA hydratase; Provisional; Region: PRK05995 393595003986 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 393595003987 substrate binding site [chemical binding]; other site 393595003988 oxyanion hole (OAH) forming residues; other site 393595003989 trimer interface [polypeptide binding]; other site 393595003990 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 393595003991 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 393595003992 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 393595003993 isovaleryl-CoA dehydrogenase; Region: PLN02519 393595003994 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 393595003995 substrate binding site [chemical binding]; other site 393595003996 FAD binding site [chemical binding]; other site 393595003997 catalytic base [active] 393595003998 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 393595003999 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 393595004000 DNA binding residues [nucleotide binding] 393595004001 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 393595004002 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595004003 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 393595004004 dimer interface [polypeptide binding]; other site 393595004005 phosphorylation site [posttranslational modification] 393595004006 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 393595004007 ATP binding site [chemical binding]; other site 393595004008 Mg2+ binding site [ion binding]; other site 393595004009 G-X-G motif; other site 393595004010 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 393595004011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595004012 active site 393595004013 phosphorylation site [posttranslational modification] 393595004014 intermolecular recognition site; other site 393595004015 dimerization interface [polypeptide binding]; other site 393595004016 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 393595004017 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 393595004018 NAD binding site [chemical binding]; other site 393595004019 active site 393595004020 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 393595004021 FOG: CBS domain [General function prediction only]; Region: COG0517 393595004022 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_16; cd04629 393595004023 Protein of unknown function (DUF805); Region: DUF805; pfam05656 393595004024 malate dehydrogenase; Provisional; Region: PRK05442 393595004025 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 393595004026 NAD(P) binding site [chemical binding]; other site 393595004027 dimer interface [polypeptide binding]; other site 393595004028 malate binding site [chemical binding]; other site 393595004029 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 393595004030 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595004031 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 393595004032 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595004033 Carboxylesterase family; Region: COesterase; pfam00135 393595004034 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 393595004035 substrate binding pocket [chemical binding]; other site 393595004036 catalytic triad [active] 393595004037 BolA-like protein; Region: BolA; cl00386 393595004038 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 393595004039 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 393595004040 active site residue [active] 393595004041 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 393595004042 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 393595004043 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 393595004044 putative PBP binding loops; other site 393595004045 ABC-ATPase subunit interface; other site 393595004046 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 393595004047 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 393595004048 Walker A/P-loop; other site 393595004049 ATP binding site [chemical binding]; other site 393595004050 Q-loop/lid; other site 393595004051 ABC transporter signature motif; other site 393595004052 Walker B; other site 393595004053 D-loop; other site 393595004054 H-loop/switch region; other site 393595004055 TOBE domain; Region: TOBE; pfam03459 393595004056 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 393595004057 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 393595004058 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 393595004059 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 393595004060 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 393595004061 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 393595004062 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 393595004063 metal binding site [ion binding]; metal-binding site 393595004064 active site 393595004065 I-site; other site 393595004066 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 393595004067 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595004068 active site 393595004069 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 393595004070 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 393595004071 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595004072 active site 393595004073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 393595004074 short chain dehydrogenase; Provisional; Region: PRK06181 393595004075 NAD(P) binding site [chemical binding]; other site 393595004076 active site 393595004077 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 393595004078 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 393595004079 Ligand Binding Site [chemical binding]; other site 393595004080 malate synthase G; Provisional; Region: PRK02999 393595004081 active site 393595004082 Putative methyltransferase; Region: Methyltransf_4; cl17290 393595004083 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 393595004084 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 393595004085 Coenzyme A binding pocket [chemical binding]; other site 393595004086 Uncharacterized conserved protein [Function unknown]; Region: COG2850 393595004087 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 393595004088 adenylosuccinate lyase; Provisional; Region: PRK09285 393595004089 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 393595004090 tetramer interface [polypeptide binding]; other site 393595004091 active site 393595004092 Protein of unknown function (DUF489); Region: DUF489; pfam04356 393595004093 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 393595004094 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 393595004095 Ligand Binding Site [chemical binding]; other site 393595004096 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 393595004097 nudix motif; other site 393595004098 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 393595004099 trimer interface [polypeptide binding]; other site 393595004100 dimer interface [polypeptide binding]; other site 393595004101 putative active site [active] 393595004102 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 393595004103 MoaE interaction surface [polypeptide binding]; other site 393595004104 MoeB interaction surface [polypeptide binding]; other site 393595004105 thiocarboxylated glycine; other site 393595004106 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 393595004107 MoaE homodimer interface [polypeptide binding]; other site 393595004108 MoaD interaction [polypeptide binding]; other site 393595004109 active site residues [active] 393595004110 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 393595004111 pseudouridine synthase; Region: TIGR00093 393595004112 active site 393595004113 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 393595004114 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 393595004115 isocitrate dehydrogenase; Validated; Region: PRK07362 393595004116 isocitrate dehydrogenase; Reviewed; Region: PRK07006 393595004117 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 393595004118 DNA-binding site [nucleotide binding]; DNA binding site 393595004119 RNA-binding motif; other site 393595004120 Uncharacterized conserved protein [Function unknown]; Region: COG2127 393595004121 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 393595004122 Clp amino terminal domain; Region: Clp_N; pfam02861 393595004123 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 393595004124 Walker A motif; other site 393595004125 ATP binding site [chemical binding]; other site 393595004126 Walker B motif; other site 393595004127 arginine finger; other site 393595004128 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 393595004129 Walker A motif; other site 393595004130 ATP binding site [chemical binding]; other site 393595004131 Walker B motif; other site 393595004132 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 393595004133 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 393595004134 rRNA binding site [nucleotide binding]; other site 393595004135 predicted 30S ribosome binding site; other site 393595004136 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 393595004137 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 393595004138 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 393595004139 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 393595004140 thioredoxin reductase; Provisional; Region: PRK10262 393595004141 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 393595004142 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 393595004143 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 393595004144 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 393595004145 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 393595004146 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 393595004147 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 393595004148 recombination factor protein RarA; Reviewed; Region: PRK13342 393595004149 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 393595004150 Walker A motif; other site 393595004151 ATP binding site [chemical binding]; other site 393595004152 Walker B motif; other site 393595004153 arginine finger; other site 393595004154 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 393595004155 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 393595004156 seryl-tRNA synthetase; Provisional; Region: PRK05431 393595004157 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 393595004158 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 393595004159 dimer interface [polypeptide binding]; other site 393595004160 active site 393595004161 motif 1; other site 393595004162 motif 2; other site 393595004163 motif 3; other site 393595004164 siroheme synthase; Provisional; Region: cysG; PRK10637 393595004165 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 393595004166 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 393595004167 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 393595004168 active site 393595004169 SAM binding site [chemical binding]; other site 393595004170 homodimer interface [polypeptide binding]; other site 393595004171 hypothetical protein; Validated; Region: PRK09071 393595004172 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 393595004173 DsrH like protein; Region: DsrH; cl17347 393595004174 DsrE/DsrF-like family; Region: DrsE; cl00672 393595004175 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 393595004176 YccA-like proteins; Region: YccA_like; cd10433 393595004177 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 393595004178 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 393595004179 DTAP/Switch II; other site 393595004180 Switch I; other site 393595004181 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 393595004182 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 393595004183 Carbon starvation protein CstA; Region: CstA; pfam02554 393595004184 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 393595004185 response regulator; Provisional; Region: PRK09483 393595004186 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595004187 active site 393595004188 phosphorylation site [posttranslational modification] 393595004189 intermolecular recognition site; other site 393595004190 dimerization interface [polypeptide binding]; other site 393595004191 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 393595004192 DNA binding residues [nucleotide binding] 393595004193 dimerization interface [polypeptide binding]; other site 393595004194 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 393595004195 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 393595004196 GIY-YIG motif/motif A; other site 393595004197 active site 393595004198 catalytic site [active] 393595004199 putative DNA binding site [nucleotide binding]; other site 393595004200 metal binding site [ion binding]; metal-binding site 393595004201 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 393595004202 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 393595004203 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 393595004204 dimerization interface [polypeptide binding]; other site 393595004205 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 393595004206 GAF domain; Region: GAF; pfam01590 393595004207 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 393595004208 dimer interface [polypeptide binding]; other site 393595004209 phosphorylation site [posttranslational modification] 393595004210 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 393595004211 ATP binding site [chemical binding]; other site 393595004212 Mg2+ binding site [ion binding]; other site 393595004213 G-X-G motif; other site 393595004214 Response regulator receiver domain; Region: Response_reg; pfam00072 393595004215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595004216 active site 393595004217 phosphorylation site [posttranslational modification] 393595004218 intermolecular recognition site; other site 393595004219 dimerization interface [polypeptide binding]; other site 393595004220 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 393595004221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595004222 active site 393595004223 phosphorylation site [posttranslational modification] 393595004224 intermolecular recognition site; other site 393595004225 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 393595004226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595004227 active site 393595004228 phosphorylation site [posttranslational modification] 393595004229 intermolecular recognition site; other site 393595004230 dimerization interface [polypeptide binding]; other site 393595004231 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 393595004232 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 393595004233 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 393595004234 Response regulator receiver domain; Region: Response_reg; pfam00072 393595004235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595004236 active site 393595004237 phosphorylation site [posttranslational modification] 393595004238 intermolecular recognition site; other site 393595004239 dimerization interface [polypeptide binding]; other site 393595004240 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 393595004241 CheB methylesterase; Region: CheB_methylest; pfam01339 393595004242 Response regulator receiver domain; Region: Response_reg; pfam00072 393595004243 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595004244 active site 393595004245 phosphorylation site [posttranslational modification] 393595004246 intermolecular recognition site; other site 393595004247 dimerization interface [polypeptide binding]; other site 393595004248 PAS fold; Region: PAS; pfam00989 393595004249 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 393595004250 putative active site [active] 393595004251 heme pocket [chemical binding]; other site 393595004252 PilZ domain; Region: PilZ; pfam07238 393595004253 type II secretion system protein E; Region: type_II_gspE; TIGR02533 393595004254 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 393595004255 Walker A motif; other site 393595004256 ATP binding site [chemical binding]; other site 393595004257 Walker B motif; other site 393595004258 type II secretion system protein F; Region: GspF; TIGR02120 393595004259 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 393595004260 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 393595004261 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 393595004262 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 393595004263 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 393595004264 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 393595004265 type II secretion system protein I; Region: gspI; TIGR01707 393595004266 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 393595004267 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 393595004268 type II secretion system protein J; Region: gspJ; TIGR01711 393595004269 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 393595004270 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 393595004271 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 393595004272 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 393595004273 GspL periplasmic domain; Region: GspL_C; cl14909 393595004274 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 393595004275 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 393595004276 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 393595004277 Predicted integral membrane protein (DUF2189); Region: DUF2189; pfam09955 393595004278 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 393595004279 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 393595004280 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 393595004281 substrate binding pocket [chemical binding]; other site 393595004282 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 393595004283 B12 binding site [chemical binding]; other site 393595004284 cobalt ligand [ion binding]; other site 393595004285 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 393595004286 Conserved TM helix; Region: TM_helix; pfam05552 393595004287 Mechanosensitive ion channel; Region: MS_channel; pfam00924 393595004288 Protein of unknown function, DUF481; Region: DUF481; pfam04338 393595004289 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 393595004290 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 393595004291 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 393595004292 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 393595004293 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 393595004294 ligand binding site [chemical binding]; other site 393595004295 homodimer interface [polypeptide binding]; other site 393595004296 NAD(P) binding site [chemical binding]; other site 393595004297 trimer interface B [polypeptide binding]; other site 393595004298 trimer interface A [polypeptide binding]; other site 393595004299 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 393595004300 ABC1 family; Region: ABC1; cl17513 393595004301 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 393595004302 carboxy-terminal protease; Provisional; Region: PRK11186 393595004303 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 393595004304 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 393595004305 protein binding site [polypeptide binding]; other site 393595004306 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 393595004307 Catalytic dyad [active] 393595004308 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 393595004309 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 393595004310 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 393595004311 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 393595004312 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 393595004313 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 393595004314 Cl binding site [ion binding]; other site 393595004315 oligomer interface [polypeptide binding]; other site 393595004316 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 393595004317 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 393595004318 hypothetical protein; Validated; Region: PRK02101 393595004319 universal stress protein UspE; Provisional; Region: PRK11175 393595004320 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 393595004321 Ligand Binding Site [chemical binding]; other site 393595004322 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 393595004323 Ligand Binding Site [chemical binding]; other site 393595004324 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 393595004325 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 393595004326 ligand binding site [chemical binding]; other site 393595004327 flexible hinge region; other site 393595004328 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 393595004329 non-specific DNA interactions [nucleotide binding]; other site 393595004330 DNA binding site [nucleotide binding] 393595004331 sequence specific DNA binding site [nucleotide binding]; other site 393595004332 putative cAMP binding site [chemical binding]; other site 393595004333 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 393595004334 HemN C-terminal domain; Region: HemN_C; pfam06969 393595004335 Family description; Region: DsbD_2; pfam13386 393595004336 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 393595004337 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 393595004338 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 393595004339 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 393595004340 metal-binding site [ion binding] 393595004341 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 393595004342 Soluble P-type ATPase [General function prediction only]; Region: COG4087 393595004343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 393595004344 FixH; Region: FixH; pfam05751 393595004345 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 393595004346 4Fe-4S binding domain; Region: Fer4_5; pfam12801 393595004347 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 393595004348 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 393595004349 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 393595004350 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 393595004351 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 393595004352 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 393595004353 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 393595004354 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 393595004355 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 393595004356 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 393595004357 Low-spin heme binding site [chemical binding]; other site 393595004358 Putative water exit pathway; other site 393595004359 Binuclear center (active site) [active] 393595004360 Putative proton exit pathway; other site 393595004361 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 393595004362 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 393595004363 putative NAD(P) binding site [chemical binding]; other site 393595004364 Transcriptional regulator [Transcription]; Region: LysR; COG0583 393595004365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595004366 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 393595004367 putative effector binding pocket; other site 393595004368 dimerization interface [polypeptide binding]; other site 393595004369 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 393595004370 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 393595004371 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 393595004372 active site 393595004373 DNA binding site [nucleotide binding] 393595004374 Int/Topo IB signature motif; other site 393595004375 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 393595004376 active site 393595004377 catalytic residues [active] 393595004378 DNA binding site [nucleotide binding] 393595004379 Int/Topo IB signature motif; other site 393595004380 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 393595004381 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 393595004382 HlyD family secretion protein; Region: HlyD_3; pfam13437 393595004383 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 393595004384 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 393595004385 Outer membrane efflux protein; Region: OEP; pfam02321 393595004386 Outer membrane efflux protein; Region: OEP; pfam02321 393595004387 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 393595004388 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 393595004389 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 393595004390 Soluble P-type ATPase [General function prediction only]; Region: COG4087 393595004391 amino acid transporter; Region: 2A0306; TIGR00909 393595004392 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 393595004393 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 393595004394 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 393595004395 Multicopper oxidase; Region: Cu-oxidase; pfam00394 393595004396 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 393595004397 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 393595004398 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 393595004399 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 393595004400 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595004401 active site 393595004402 phosphorylation site [posttranslational modification] 393595004403 intermolecular recognition site; other site 393595004404 dimerization interface [polypeptide binding]; other site 393595004405 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 393595004406 DNA binding site [nucleotide binding] 393595004407 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595004408 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 393595004409 ATP binding site [chemical binding]; other site 393595004410 Mg2+ binding site [ion binding]; other site 393595004411 G-X-G motif; other site 393595004412 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 393595004413 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 393595004414 DNA binding residues [nucleotide binding] 393595004415 dimer interface [polypeptide binding]; other site 393595004416 putative metal binding site [ion binding]; other site 393595004417 Heavy-metal-associated domain; Region: HMA; pfam00403 393595004418 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 393595004419 lipoprotein signal peptidase; Provisional; Region: PRK14794 393595004420 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 393595004421 non-specific DNA binding site [nucleotide binding]; other site 393595004422 salt bridge; other site 393595004423 sequence-specific DNA binding site [nucleotide binding]; other site 393595004424 SEC-C motif; Region: SEC-C; pfam02810 393595004425 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 393595004426 hypothetical protein; Provisional; Region: PRK02237 393595004427 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 393595004428 hypothetical protein; Provisional; Region: PRK09272 393595004429 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 393595004430 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 393595004431 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 393595004432 putative substrate binding region [chemical binding]; other site 393595004433 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 393595004434 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 393595004435 carboxyltransferase (CT) interaction site; other site 393595004436 biotinylation site [posttranslational modification]; other site 393595004437 Outer membrane efflux protein; Region: OEP; pfam02321 393595004438 Outer membrane efflux protein; Region: OEP; pfam02321 393595004439 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 393595004440 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 393595004441 Outer membrane efflux protein; Region: OEP; pfam02321 393595004442 Outer membrane efflux protein; Region: OEP; pfam02321 393595004443 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 393595004444 HlyD family secretion protein; Region: HlyD_3; pfam13437 393595004445 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 393595004446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 393595004447 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 393595004448 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 393595004449 Walker A motif; other site 393595004450 ATP binding site [chemical binding]; other site 393595004451 Walker B motif; other site 393595004452 arginine finger; other site 393595004453 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 393595004454 RNA methyltransferase, RsmE family; Region: TIGR00046 393595004455 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 393595004456 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 393595004457 RNA binding surface [nucleotide binding]; other site 393595004458 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 393595004459 probable active site [active] 393595004460 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 393595004461 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 393595004462 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 393595004463 active site 393595004464 HIGH motif; other site 393595004465 dimer interface [polypeptide binding]; other site 393595004466 KMSKS motif; other site 393595004467 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 393595004468 active site 393595004469 KMSKS motif; other site 393595004470 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 393595004471 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 393595004472 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 393595004473 active site 393595004474 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 393595004475 Intracellular septation protein A; Region: IspA; pfam04279 393595004476 YciI-like protein; Reviewed; Region: PRK11370 393595004477 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 393595004478 Bacterial SH3 domain; Region: SH3_3; pfam08239 393595004479 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 393595004480 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 393595004481 putative acyl-acceptor binding pocket; other site 393595004482 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 393595004483 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 393595004484 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 393595004485 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 393595004486 active site 393595004487 catalytic triad [active] 393595004488 oxyanion hole [active] 393595004489 switch loop; other site 393595004490 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 393595004491 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 393595004492 Walker A/P-loop; other site 393595004493 ATP binding site [chemical binding]; other site 393595004494 Q-loop/lid; other site 393595004495 ABC transporter signature motif; other site 393595004496 Walker B; other site 393595004497 D-loop; other site 393595004498 H-loop/switch region; other site 393595004499 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 393595004500 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 393595004501 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 393595004502 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 393595004503 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 393595004504 TrkA-N domain; Region: TrkA_N; pfam02254 393595004505 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 393595004506 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 393595004507 DNA binding residues [nucleotide binding] 393595004508 dimer interface [polypeptide binding]; other site 393595004509 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 393595004510 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 393595004511 putative N- and C-terminal domain interface [polypeptide binding]; other site 393595004512 putative active site [active] 393595004513 MgATP binding site [chemical binding]; other site 393595004514 catalytic site [active] 393595004515 metal binding site [ion binding]; metal-binding site 393595004516 putative carbohydrate binding site [chemical binding]; other site 393595004517 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 393595004518 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 393595004519 FAD binding domain; Region: FAD_binding_4; pfam01565 393595004520 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 393595004521 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 393595004522 putative acyl-acceptor binding pocket; other site 393595004523 putative outer membrane lipoprotein; Provisional; Region: PRK10510 393595004524 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 393595004525 ligand binding site [chemical binding]; other site 393595004526 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 393595004527 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 393595004528 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595004529 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595004530 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 393595004531 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 393595004532 DNA binding site [nucleotide binding] 393595004533 active site 393595004534 AlkA N-terminal domain; Region: AlkA_N; cl05528 393595004535 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 393595004536 endonuclease III; Region: ENDO3c; smart00478 393595004537 minor groove reading motif; other site 393595004538 helix-hairpin-helix signature motif; other site 393595004539 substrate binding pocket [chemical binding]; other site 393595004540 active site 393595004541 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 393595004542 Major Facilitator Superfamily; Region: MFS_1; pfam07690 393595004543 putative substrate translocation pore; other site 393595004544 Hypothetical patatin similar to WS1459 of Wolinella succinogenes; Region: Pat_hypo_W_succinogenes_WS1459_like; cd07210 393595004545 active site 393595004546 nucleophile elbow; other site 393595004547 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 393595004548 dinuclear metal binding motif [ion binding]; other site 393595004549 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 393595004550 CoenzymeA binding site [chemical binding]; other site 393595004551 subunit interaction site [polypeptide binding]; other site 393595004552 PHB binding site; other site 393595004553 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 393595004554 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 393595004555 Uncharacterized conserved protein [Function unknown]; Region: COG3339 393595004556 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 393595004557 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 393595004558 P-loop; other site 393595004559 Magnesium ion binding site [ion binding]; other site 393595004560 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 393595004561 Magnesium ion binding site [ion binding]; other site 393595004562 glutathione reductase; Validated; Region: PRK06116 393595004563 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 393595004564 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 393595004565 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 393595004566 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 393595004567 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 393595004568 active site 393595004569 FMN binding site [chemical binding]; other site 393595004570 substrate binding site [chemical binding]; other site 393595004571 3Fe-4S cluster binding site [ion binding]; other site 393595004572 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 393595004573 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 393595004574 N-acetyl-D-glucosamine binding site [chemical binding]; other site 393595004575 catalytic residue [active] 393595004576 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 393595004577 iron-sulfur cluster [ion binding]; other site 393595004578 [2Fe-2S] cluster binding site [ion binding]; other site 393595004579 phosphoenolpyruvate synthase; Validated; Region: PRK06464 393595004580 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 393595004581 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 393595004582 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 393595004583 PEP synthetase regulatory protein; Provisional; Region: PRK05339 393595004584 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 393595004585 2-methylcitrate dehydratase; Region: prpD; TIGR02330 393595004586 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 393595004587 aconitate hydratase; Validated; Region: PRK09277 393595004588 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 393595004589 substrate binding site [chemical binding]; other site 393595004590 ligand binding site [chemical binding]; other site 393595004591 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 393595004592 substrate binding site [chemical binding]; other site 393595004593 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 393595004594 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 393595004595 dimer interface [polypeptide binding]; other site 393595004596 active site 393595004597 citrylCoA binding site [chemical binding]; other site 393595004598 oxalacetate/citrate binding site [chemical binding]; other site 393595004599 coenzyme A binding site [chemical binding]; other site 393595004600 catalytic triad [active] 393595004601 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 393595004602 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 393595004603 tetramer interface [polypeptide binding]; other site 393595004604 active site 393595004605 Mg2+/Mn2+ binding site [ion binding]; other site 393595004606 Transcriptional regulators [Transcription]; Region: GntR; COG1802 393595004607 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 393595004608 DNA-binding site [nucleotide binding]; DNA binding site 393595004609 FCD domain; Region: FCD; pfam07729 393595004610 aminodeoxychorismate synthase; Provisional; Region: PRK07508 393595004611 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 393595004612 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 393595004613 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 393595004614 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 393595004615 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595004616 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 393595004617 substrate binding site [chemical binding]; other site 393595004618 dimerization interface [polypeptide binding]; other site 393595004619 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 393595004620 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 393595004621 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 393595004622 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 393595004623 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 393595004624 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 393595004625 methylthioribulose-1-phosphate dehydratase; Region: salvage_mtnB; TIGR03328 393595004626 intersubunit interface [polypeptide binding]; other site 393595004627 active site 393595004628 Zn2+ binding site [ion binding]; other site 393595004629 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 393595004630 Cupin domain; Region: Cupin_2; pfam07883 393595004631 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 393595004632 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 393595004633 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 393595004634 S-adenosylmethionine binding site [chemical binding]; other site 393595004635 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 393595004636 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 393595004637 ATP binding site [chemical binding]; other site 393595004638 putative Mg++ binding site [ion binding]; other site 393595004639 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 393595004640 nucleotide binding region [chemical binding]; other site 393595004641 ATP-binding site [chemical binding]; other site 393595004642 Helicase associated domain (HA2); Region: HA2; pfam04408 393595004643 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 393595004644 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 393595004645 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 393595004646 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 393595004647 Protein of unknown function DUF58; Region: DUF58; pfam01882 393595004648 MoxR-like ATPases [General function prediction only]; Region: COG0714 393595004649 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 393595004650 Walker A motif; other site 393595004651 ATP binding site [chemical binding]; other site 393595004652 Walker B motif; other site 393595004653 arginine finger; other site 393595004654 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 393595004655 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 393595004656 homodimer interface [polypeptide binding]; other site 393595004657 substrate-cofactor binding pocket; other site 393595004658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595004659 catalytic residue [active] 393595004660 amidophosphoribosyltransferase; Provisional; Region: PRK09246 393595004661 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 393595004662 active site 393595004663 tetramer interface [polypeptide binding]; other site 393595004664 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 393595004665 active site 393595004666 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 393595004667 Colicin V production protein; Region: Colicin_V; pfam02674 393595004668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 393595004669 Sporulation related domain; Region: SPOR; pfam05036 393595004670 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 393595004671 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 393595004672 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 393595004673 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 393595004674 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 393595004675 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 393595004676 substrate binding site [chemical binding]; other site 393595004677 active site 393595004678 catalytic residues [active] 393595004679 heterodimer interface [polypeptide binding]; other site 393595004680 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 393595004681 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 393595004682 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595004683 catalytic residue [active] 393595004684 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 393595004685 active site 393595004686 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 393595004687 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 393595004688 dimerization interface 3.5A [polypeptide binding]; other site 393595004689 active site 393595004690 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 393595004691 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 393595004692 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 393595004693 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 393595004694 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 393595004695 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 393595004696 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 393595004697 tartrate dehydrogenase; Region: TTC; TIGR02089 393595004698 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 393595004699 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 393595004700 substrate binding site [chemical binding]; other site 393595004701 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 393595004702 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 393595004703 substrate binding site [chemical binding]; other site 393595004704 ligand binding site [chemical binding]; other site 393595004705 Transcriptional regulator [Transcription]; Region: LysR; COG0583 393595004706 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595004707 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 393595004708 dimerization interface [polypeptide binding]; other site 393595004709 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 393595004710 MFS_1 like family; Region: MFS_1_like; pfam12832 393595004711 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 393595004712 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 393595004713 Tetramer interface [polypeptide binding]; other site 393595004714 active site 393595004715 FMN-binding site [chemical binding]; other site 393595004716 HemK family putative methylases; Region: hemK_fam; TIGR00536 393595004717 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 393595004718 S-adenosylmethionine binding site [chemical binding]; other site 393595004719 EVE domain; Region: EVE; pfam01878 393595004720 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 393595004721 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 393595004722 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 393595004723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 393595004724 active site 393595004725 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 393595004726 Response regulator receiver domain; Region: Response_reg; pfam00072 393595004727 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595004728 active site 393595004729 phosphorylation site [posttranslational modification] 393595004730 intermolecular recognition site; other site 393595004731 dimerization interface [polypeptide binding]; other site 393595004732 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 393595004733 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 393595004734 metal binding site [ion binding]; metal-binding site 393595004735 active site 393595004736 I-site; other site 393595004737 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 393595004738 putative active site [active] 393595004739 putative catalytic site [active] 393595004740 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 393595004741 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 393595004742 catalytic site [active] 393595004743 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 393595004744 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 393595004745 putative catalytic site [active] 393595004746 putative phosphate binding site [ion binding]; other site 393595004747 active site 393595004748 metal binding site A [ion binding]; metal-binding site 393595004749 DNA binding site [nucleotide binding] 393595004750 putative AP binding site [nucleotide binding]; other site 393595004751 putative metal binding site B [ion binding]; other site 393595004752 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 393595004753 catalytic core [active] 393595004754 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 393595004755 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 393595004756 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 393595004757 heat shock protein 90; Provisional; Region: PRK05218 393595004758 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 393595004759 ATP binding site [chemical binding]; other site 393595004760 Mg2+ binding site [ion binding]; other site 393595004761 G-X-G motif; other site 393595004762 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 393595004763 CoA binding domain; Region: CoA_binding; pfam02629 393595004764 CoA-ligase; Region: Ligase_CoA; pfam00549 393595004765 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 393595004766 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 393595004767 CoA-ligase; Region: Ligase_CoA; pfam00549 393595004768 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 393595004769 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 393595004770 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 393595004771 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 393595004772 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 393595004773 E3 interaction surface; other site 393595004774 lipoyl attachment site [posttranslational modification]; other site 393595004775 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 393595004776 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 393595004777 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 393595004778 TPP-binding site [chemical binding]; other site 393595004779 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 393595004780 dimer interface [polypeptide binding]; other site 393595004781 PYR/PP interface [polypeptide binding]; other site 393595004782 TPP binding site [chemical binding]; other site 393595004783 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 393595004784 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 393595004785 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 393595004786 L-aspartate oxidase; Provisional; Region: PRK06175 393595004787 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 393595004788 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 393595004789 SdhC subunit interface [polypeptide binding]; other site 393595004790 proximal heme binding site [chemical binding]; other site 393595004791 cardiolipin binding site; other site 393595004792 Iron-sulfur protein interface; other site 393595004793 proximal quinone binding site [chemical binding]; other site 393595004794 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 393595004795 Iron-sulfur protein interface; other site 393595004796 proximal quinone binding site [chemical binding]; other site 393595004797 SdhD (CybS) interface [polypeptide binding]; other site 393595004798 proximal heme binding site [chemical binding]; other site 393595004799 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 393595004800 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 393595004801 dimer interface [polypeptide binding]; other site 393595004802 active site 393595004803 citrylCoA binding site [chemical binding]; other site 393595004804 NADH binding [chemical binding]; other site 393595004805 cationic pore residues; other site 393595004806 oxalacetate/citrate binding site [chemical binding]; other site 393595004807 coenzyme A binding site [chemical binding]; other site 393595004808 catalytic triad [active] 393595004809 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 393595004810 Strictosidine synthase; Region: Str_synth; pfam03088 393595004811 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 393595004812 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 393595004813 Amidohydrolase; Region: Amidohydro_2; pfam04909 393595004814 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 393595004815 RES domain; Region: RES; smart00953 393595004816 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 393595004817 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 393595004818 N-terminal plug; other site 393595004819 ligand-binding site [chemical binding]; other site 393595004820 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 393595004821 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 393595004822 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 393595004823 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 393595004824 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 393595004825 active site 393595004826 HIGH motif; other site 393595004827 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 393595004828 active site 393595004829 KMSKS motif; other site 393595004830 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 393595004831 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 393595004832 Ligand Binding Site [chemical binding]; other site 393595004833 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 393595004834 Ligand Binding Site [chemical binding]; other site 393595004835 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 393595004836 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 393595004837 Sulfate transporter family; Region: Sulfate_transp; pfam00916 393595004838 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 393595004839 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 393595004840 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 393595004841 FMN binding site [chemical binding]; other site 393595004842 active site 393595004843 catalytic residues [active] 393595004844 substrate binding site [chemical binding]; other site 393595004845 transaldolase-like protein; Provisional; Region: PTZ00411 393595004846 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 393595004847 active site 393595004848 dimer interface [polypeptide binding]; other site 393595004849 catalytic residue [active] 393595004850 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 393595004851 putative metal binding site [ion binding]; other site 393595004852 VacJ like lipoprotein; Region: VacJ; cl01073 393595004853 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 393595004854 hypothetical protein; Provisional; Region: PRK05409 393595004855 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 393595004856 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 393595004857 dimer interface [polypeptide binding]; other site 393595004858 active site 393595004859 CoA binding pocket [chemical binding]; other site 393595004860 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 393595004861 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 393595004862 ATP binding site [chemical binding]; other site 393595004863 putative Mg++ binding site [ion binding]; other site 393595004864 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 393595004865 nucleotide binding region [chemical binding]; other site 393595004866 ATP-binding site [chemical binding]; other site 393595004867 Helicase associated domain (HA2); Region: HA2; pfam04408 393595004868 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 393595004869 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 393595004870 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 393595004871 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 393595004872 PDZ domain; Region: PDZ_2; pfam13180 393595004873 protein binding site [polypeptide binding]; other site 393595004874 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 393595004875 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 393595004876 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 393595004877 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 393595004878 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 393595004879 substrate binding pocket [chemical binding]; other site 393595004880 membrane-bound complex binding site; other site 393595004881 hinge residues; other site 393595004882 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 393595004883 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 393595004884 substrate binding pocket [chemical binding]; other site 393595004885 membrane-bound complex binding site; other site 393595004886 hinge residues; other site 393595004887 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 393595004888 N-acetyl-D-glucosamine binding site [chemical binding]; other site 393595004889 catalytic residue [active] 393595004890 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 393595004891 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 393595004892 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 393595004893 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 393595004894 ligand binding site [chemical binding]; other site 393595004895 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 393595004896 CoA-transferase family III; Region: CoA_transf_3; pfam02515 393595004897 methionine sulfoxide reductase A; Provisional; Region: PRK13014 393595004898 methionine sulfoxide reductase B; Provisional; Region: PRK00222 393595004899 SelR domain; Region: SelR; pfam01641 393595004900 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 393595004901 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595004902 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 393595004903 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595004904 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 393595004905 putative hydrophobic ligand binding site [chemical binding]; other site 393595004906 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 393595004907 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 393595004908 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 393595004909 motif II; other site 393595004910 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 393595004911 Predicted flavoprotein [General function prediction only]; Region: COG0431 393595004912 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 393595004913 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 393595004914 Fumarase C-terminus; Region: Fumerase_C; pfam05683 393595004915 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 393595004916 Acylphosphatase; Region: Acylphosphatase; pfam00708 393595004917 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 393595004918 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 393595004919 Transcriptional regulator; Region: Rrf2; cl17282 393595004920 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 393595004921 ArsC family; Region: ArsC; pfam03960 393595004922 catalytic residues [active] 393595004923 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 393595004924 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 393595004925 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 393595004926 RDD family; Region: RDD; pfam06271 393595004927 Integral membrane protein DUF95; Region: DUF95; pfam01944 393595004928 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 393595004929 MoxR-like ATPases [General function prediction only]; Region: COG0714 393595004930 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 393595004931 Walker A motif; other site 393595004932 ATP binding site [chemical binding]; other site 393595004933 Walker B motif; other site 393595004934 arginine finger; other site 393595004935 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 393595004936 Protein of unknown function DUF58; Region: DUF58; pfam01882 393595004937 Protein of unknown function, DUF462; Region: DUF462; pfam04315 393595004938 multidrug efflux protein; Reviewed; Region: PRK01766 393595004939 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 393595004940 cation binding site [ion binding]; other site 393595004941 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 393595004942 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 393595004943 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 393595004944 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 393595004945 putative active site pocket [active] 393595004946 dimerization interface [polypeptide binding]; other site 393595004947 putative catalytic residue [active] 393595004948 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 393595004949 CPxP motif; other site 393595004950 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 393595004951 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 393595004952 putative substrate translocation pore; other site 393595004953 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 393595004954 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 393595004955 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 393595004956 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 393595004957 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 393595004958 putative active site [active] 393595004959 putative substrate binding site [chemical binding]; other site 393595004960 putative cosubstrate binding site; other site 393595004961 catalytic site [active] 393595004962 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595004963 Helix-turn-helix domain; Region: HTH_18; pfam12833 393595004964 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595004965 Response regulator receiver domain; Region: Response_reg; pfam00072 393595004966 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595004967 active site 393595004968 phosphorylation site [posttranslational modification] 393595004969 intermolecular recognition site; other site 393595004970 dimerization interface [polypeptide binding]; other site 393595004971 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 393595004972 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 393595004973 substrate binding site [chemical binding]; other site 393595004974 oxyanion hole (OAH) forming residues; other site 393595004975 trimer interface [polypeptide binding]; other site 393595004976 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 393595004977 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 393595004978 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 393595004979 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 393595004980 dimer interface [polypeptide binding]; other site 393595004981 active site 393595004982 GST_N family, 2 repeats of the N-terminal domain of soluble GSTs (2 GST_N) subfamily; composed of uncharacterized proteins. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a...; Region: GST_N_2GST_N; cd03041 393595004983 putative C-terminal domain interface [polypeptide binding]; other site 393595004984 putative GSH binding site (G-site) [chemical binding]; other site 393595004985 putative dimer interface [polypeptide binding]; other site 393595004986 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 393595004987 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 393595004988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 393595004989 Smr domain; Region: Smr; pfam01713 393595004990 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 393595004991 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 393595004992 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 393595004993 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 393595004994 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 393595004995 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 393595004996 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 393595004997 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 393595004998 dimerization interface [polypeptide binding]; other site 393595004999 putative ATP binding site [chemical binding]; other site 393595005000 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 393595005001 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 393595005002 active site 393595005003 substrate binding site [chemical binding]; other site 393595005004 cosubstrate binding site; other site 393595005005 catalytic site [active] 393595005006 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 393595005007 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 393595005008 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 393595005009 trimer interface [polypeptide binding]; other site 393595005010 active site 393595005011 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 393595005012 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 393595005013 Walker A motif; other site 393595005014 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 393595005015 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595005016 Helix-turn-helix domain; Region: HTH_18; pfam12833 393595005017 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595005018 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 393595005019 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 393595005020 active site 393595005021 nucleophile elbow; other site 393595005022 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 393595005023 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 393595005024 active site 393595005025 DNA binding site [nucleotide binding] 393595005026 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 393595005027 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 393595005028 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 393595005029 Catalytic site [active] 393595005030 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 393595005031 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 393595005032 putative NADP binding site [chemical binding]; other site 393595005033 putative substrate binding site [chemical binding]; other site 393595005034 active site 393595005035 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 393595005036 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 393595005037 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 393595005038 S-adenosylmethionine binding site [chemical binding]; other site 393595005039 lytic murein transglycosylase; Provisional; Region: PRK11619 393595005040 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 393595005041 N-acetyl-D-glucosamine binding site [chemical binding]; other site 393595005042 catalytic residue [active] 393595005043 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 393595005044 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 393595005045 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 393595005046 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 393595005047 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 393595005048 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595005049 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595005050 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 393595005051 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 393595005052 FeS/SAM binding site; other site 393595005053 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 393595005054 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 393595005055 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 393595005056 putative active site [active] 393595005057 putative metal binding site [ion binding]; other site 393595005058 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 393595005059 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 393595005060 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595005061 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 393595005062 dimer interface [polypeptide binding]; other site 393595005063 phosphorylation site [posttranslational modification] 393595005064 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 393595005065 ATP binding site [chemical binding]; other site 393595005066 Mg2+ binding site [ion binding]; other site 393595005067 G-X-G motif; other site 393595005068 Response regulator receiver domain; Region: Response_reg; pfam00072 393595005069 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595005070 active site 393595005071 phosphorylation site [posttranslational modification] 393595005072 intermolecular recognition site; other site 393595005073 dimerization interface [polypeptide binding]; other site 393595005074 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 393595005075 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 393595005076 active site 393595005077 HIGH motif; other site 393595005078 KMSKS motif; other site 393595005079 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 393595005080 tRNA binding surface [nucleotide binding]; other site 393595005081 anticodon binding site; other site 393595005082 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 393595005083 dimer interface [polypeptide binding]; other site 393595005084 putative tRNA-binding site [nucleotide binding]; other site 393595005085 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 393595005086 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 393595005087 ligand binding site [chemical binding]; other site 393595005088 flexible hinge region; other site 393595005089 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 393595005090 putative switch regulator; other site 393595005091 non-specific DNA interactions [nucleotide binding]; other site 393595005092 DNA binding site [nucleotide binding] 393595005093 sequence specific DNA binding site [nucleotide binding]; other site 393595005094 putative cAMP binding site [chemical binding]; other site 393595005095 aldolase II superfamily protein; Provisional; Region: PRK07044 393595005096 intersubunit interface [polypeptide binding]; other site 393595005097 active site 393595005098 Zn2+ binding site [ion binding]; other site 393595005099 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 393595005100 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 393595005101 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 393595005102 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 393595005103 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 393595005104 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 393595005105 catalytic residue [active] 393595005106 electron transport complex protein RsxA; Provisional; Region: PRK05151 393595005107 ferredoxin; Provisional; Region: PRK08764 393595005108 Putative Fe-S cluster; Region: FeS; pfam04060 393595005109 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 393595005110 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 393595005111 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 393595005112 SLBB domain; Region: SLBB; pfam10531 393595005113 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 393595005114 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 393595005115 FMN-binding domain; Region: FMN_bind; cl01081 393595005116 electron transport complex RsxE subunit; Provisional; Region: PRK12405 393595005117 hypothetical protein; Provisional; Region: PRK11280 393595005118 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 393595005119 endonuclease III; Provisional; Region: PRK10702 393595005120 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 393595005121 minor groove reading motif; other site 393595005122 helix-hairpin-helix signature motif; other site 393595005123 substrate binding pocket [chemical binding]; other site 393595005124 active site 393595005125 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 393595005126 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 393595005127 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 393595005128 Uncharacterized conserved protein [Function unknown]; Region: COG1739 393595005129 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 393595005130 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 393595005131 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 393595005132 eyelet of channel; other site 393595005133 trimer interface [polypeptide binding]; other site 393595005134 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 393595005135 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 393595005136 homodimer interface [polypeptide binding]; other site 393595005137 metal binding site [ion binding]; metal-binding site 393595005138 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 393595005139 homodimer interface [polypeptide binding]; other site 393595005140 active site 393595005141 putative chemical substrate binding site [chemical binding]; other site 393595005142 metal binding site [ion binding]; metal-binding site 393595005143 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 393595005144 HD domain; Region: HD_4; pfam13328 393595005145 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 393595005146 synthetase active site [active] 393595005147 NTP binding site [chemical binding]; other site 393595005148 metal binding site [ion binding]; metal-binding site 393595005149 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 393595005150 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 393595005151 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 393595005152 TRAM domain; Region: TRAM; pfam01938 393595005153 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 393595005154 S-adenosylmethionine binding site [chemical binding]; other site 393595005155 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 393595005156 active site 393595005157 catalytic site [active] 393595005158 substrate binding site [chemical binding]; other site 393595005159 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 393595005160 cysteine synthase B; Region: cysM; TIGR01138 393595005161 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 393595005162 dimer interface [polypeptide binding]; other site 393595005163 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595005164 catalytic residue [active] 393595005165 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 393595005166 dimerization interface [polypeptide binding]; other site 393595005167 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 393595005168 dimer interface [polypeptide binding]; other site 393595005169 phosphorylation site [posttranslational modification] 393595005170 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 393595005171 ATP binding site [chemical binding]; other site 393595005172 Mg2+ binding site [ion binding]; other site 393595005173 G-X-G motif; other site 393595005174 Response regulator receiver domain; Region: Response_reg; pfam00072 393595005175 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595005176 active site 393595005177 phosphorylation site [posttranslational modification] 393595005178 intermolecular recognition site; other site 393595005179 dimerization interface [polypeptide binding]; other site 393595005180 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 393595005181 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 393595005182 active site 393595005183 hydrophilic channel; other site 393595005184 dimerization interface [polypeptide binding]; other site 393595005185 catalytic residues [active] 393595005186 active site lid [active] 393595005187 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 393595005188 Recombination protein O C terminal; Region: RecO_C; pfam02565 393595005189 GTPase Era; Reviewed; Region: era; PRK00089 393595005190 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 393595005191 G1 box; other site 393595005192 GTP/Mg2+ binding site [chemical binding]; other site 393595005193 Switch I region; other site 393595005194 G2 box; other site 393595005195 Switch II region; other site 393595005196 G3 box; other site 393595005197 G4 box; other site 393595005198 G5 box; other site 393595005199 KH domain; Region: KH_2; pfam07650 393595005200 ribonuclease III; Reviewed; Region: rnc; PRK00102 393595005201 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 393595005202 dimerization interface [polypeptide binding]; other site 393595005203 active site 393595005204 metal binding site [ion binding]; metal-binding site 393595005205 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 393595005206 dsRNA binding site [nucleotide binding]; other site 393595005207 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 393595005208 signal peptidase I; Provisional; Region: PRK10861 393595005209 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 393595005210 Catalytic site [active] 393595005211 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 393595005212 GTP-binding protein LepA; Provisional; Region: PRK05433 393595005213 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 393595005214 G1 box; other site 393595005215 putative GEF interaction site [polypeptide binding]; other site 393595005216 GTP/Mg2+ binding site [chemical binding]; other site 393595005217 Switch I region; other site 393595005218 G2 box; other site 393595005219 G3 box; other site 393595005220 Switch II region; other site 393595005221 G4 box; other site 393595005222 G5 box; other site 393595005223 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 393595005224 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 393595005225 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 393595005226 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 393595005227 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 393595005228 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 393595005229 protein binding site [polypeptide binding]; other site 393595005230 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 393595005231 protein binding site [polypeptide binding]; other site 393595005232 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 393595005233 anti-sigma E factor; Provisional; Region: rseB; PRK09455 393595005234 MucB/RseB family; Region: MucB_RseB; pfam03888 393595005235 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 393595005236 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 393595005237 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 393595005238 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 393595005239 DNA binding residues [nucleotide binding] 393595005240 L-aspartate oxidase; Provisional; Region: PRK09077 393595005241 L-aspartate oxidase; Provisional; Region: PRK06175 393595005242 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 393595005243 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 393595005244 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 393595005245 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 393595005246 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 393595005247 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 393595005248 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 393595005249 substrate binding site [chemical binding]; other site 393595005250 oxyanion hole (OAH) forming residues; other site 393595005251 trimer interface [polypeptide binding]; other site 393595005252 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 393595005253 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 393595005254 ligand binding site [chemical binding]; other site 393595005255 active site 393595005256 UGI interface [polypeptide binding]; other site 393595005257 catalytic site [active] 393595005258 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595005259 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595005260 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 393595005261 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 393595005262 dimer interface [polypeptide binding]; other site 393595005263 putative anticodon binding site; other site 393595005264 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 393595005265 motif 1; other site 393595005266 active site 393595005267 motif 2; other site 393595005268 motif 3; other site 393595005269 peptide chain release factor 2; Validated; Region: prfB; PRK00578 393595005270 This domain is found in peptide chain release factors; Region: PCRF; smart00937 393595005271 RF-1 domain; Region: RF-1; pfam00472 393595005272 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 393595005273 DHH family; Region: DHH; pfam01368 393595005274 DHHA1 domain; Region: DHHA1; pfam02272 393595005275 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 393595005276 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 393595005277 substrate binding site [chemical binding]; other site 393595005278 oxyanion hole (OAH) forming residues; other site 393595005279 trimer interface [polypeptide binding]; other site 393595005280 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 393595005281 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 393595005282 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 393595005283 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 393595005284 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 393595005285 dimer interface [polypeptide binding]; other site 393595005286 active site 393595005287 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 393595005288 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 393595005289 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 393595005290 cofactor binding site; other site 393595005291 DNA binding site [nucleotide binding] 393595005292 substrate interaction site [chemical binding]; other site 393595005293 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 393595005294 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 393595005295 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 393595005296 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 393595005297 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 393595005298 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 393595005299 HSP70 interaction site [polypeptide binding]; other site 393595005300 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 393595005301 substrate binding site [polypeptide binding]; other site 393595005302 dimer interface [polypeptide binding]; other site 393595005303 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 393595005304 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 393595005305 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 393595005306 acyl-activating enzyme (AAE) consensus motif; other site 393595005307 putative AMP binding site [chemical binding]; other site 393595005308 putative active site [active] 393595005309 putative CoA binding site [chemical binding]; other site 393595005310 FOG: CBS domain [General function prediction only]; Region: COG0517 393595005311 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_16; cd04629 393595005312 Nuclease-related domain; Region: NERD; pfam08378 393595005313 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 393595005314 ATP binding site [chemical binding]; other site 393595005315 putative Mg++ binding site [ion binding]; other site 393595005316 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 393595005317 catalytic site [active] 393595005318 Family description; Region: UvrD_C_2; pfam13538 393595005319 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 393595005320 Ion transport protein; Region: Ion_trans; pfam00520 393595005321 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06645 393595005322 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 393595005323 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 393595005324 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 393595005325 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 393595005326 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 393595005327 Walker A/P-loop; other site 393595005328 ATP binding site [chemical binding]; other site 393595005329 Q-loop/lid; other site 393595005330 ABC transporter signature motif; other site 393595005331 Walker B; other site 393595005332 D-loop; other site 393595005333 H-loop/switch region; other site 393595005334 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 393595005335 MerC mercury resistance protein; Region: MerC; pfam03203 393595005336 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 393595005337 metal binding site 2 [ion binding]; metal-binding site 393595005338 putative DNA binding helix; other site 393595005339 metal binding site 1 [ion binding]; metal-binding site 393595005340 dimer interface [polypeptide binding]; other site 393595005341 structural Zn2+ binding site [ion binding]; other site 393595005342 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 393595005343 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 393595005344 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 393595005345 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 393595005346 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 393595005347 peptide S-glycosyltransferase, SunS family; Region: S_glycosyl_SunS; TIGR04195 393595005348 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 393595005349 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 393595005350 trimer interface [polypeptide binding]; other site 393595005351 active site 393595005352 dihydroorotase; Validated; Region: PRK09060 393595005353 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 393595005354 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 393595005355 active site 393595005356 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 393595005357 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 393595005358 active site 393595005359 motif I; other site 393595005360 motif II; other site 393595005361 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 393595005362 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 393595005363 Active Sites [active] 393595005364 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 393595005365 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 393595005366 N-terminal plug; other site 393595005367 ligand-binding site [chemical binding]; other site 393595005368 enterobactin receptor protein; Provisional; Region: PRK13483 393595005369 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 393595005370 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595005371 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 393595005372 dimer interface [polypeptide binding]; other site 393595005373 phosphorylation site [posttranslational modification] 393595005374 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 393595005375 ATP binding site [chemical binding]; other site 393595005376 Mg2+ binding site [ion binding]; other site 393595005377 G-X-G motif; other site 393595005378 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 393595005379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595005380 active site 393595005381 phosphorylation site [posttranslational modification] 393595005382 intermolecular recognition site; other site 393595005383 dimerization interface [polypeptide binding]; other site 393595005384 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 393595005385 DNA binding site [nucleotide binding] 393595005386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 393595005387 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 393595005388 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 393595005389 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 393595005390 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 393595005391 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 393595005392 ATP binding site [chemical binding]; other site 393595005393 Mg++ binding site [ion binding]; other site 393595005394 motif III; other site 393595005395 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 393595005396 nucleotide binding region [chemical binding]; other site 393595005397 ATP-binding site [chemical binding]; other site 393595005398 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 393595005399 putative RNA binding site [nucleotide binding]; other site 393595005400 Dodecin; Region: Dodecin; pfam07311 393595005401 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 393595005402 putative FMN binding site [chemical binding]; other site 393595005403 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 393595005404 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 393595005405 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 393595005406 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 393595005407 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595005408 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 393595005409 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595005410 active site 393595005411 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 393595005412 dimerization interface [polypeptide binding]; other site 393595005413 putative DNA binding site [nucleotide binding]; other site 393595005414 putative Zn2+ binding site [ion binding]; other site 393595005415 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 393595005416 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 393595005417 putative active site [active] 393595005418 putative FMN binding site [chemical binding]; other site 393595005419 putative substrate binding site [chemical binding]; other site 393595005420 putative catalytic residue [active] 393595005421 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 393595005422 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 393595005423 active site 393595005424 FMN binding site [chemical binding]; other site 393595005425 2,4-decadienoyl-CoA binding site; other site 393595005426 catalytic residue [active] 393595005427 4Fe-4S cluster binding site [ion binding]; other site 393595005428 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 393595005429 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 393595005430 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595005431 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595005432 WHG domain; Region: WHG; pfam13305 393595005433 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 393595005434 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 393595005435 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 393595005436 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 393595005437 ATP binding site [chemical binding]; other site 393595005438 Mg2+ binding site [ion binding]; other site 393595005439 G-X-G motif; other site 393595005440 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 393595005441 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595005442 active site 393595005443 phosphorylation site [posttranslational modification] 393595005444 intermolecular recognition site; other site 393595005445 dimerization interface [polypeptide binding]; other site 393595005446 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 393595005447 DNA binding site [nucleotide binding] 393595005448 Predicted membrane protein [Function unknown]; Region: COG3212 393595005449 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 393595005450 Predicted membrane protein [Function unknown]; Region: COG3212 393595005451 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 393595005452 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 393595005453 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 393595005454 dimer interface [polypeptide binding]; other site 393595005455 active site 393595005456 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 393595005457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 393595005458 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 393595005459 NAD(P) binding site [chemical binding]; other site 393595005460 active site 393595005461 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 393595005462 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595005463 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 393595005464 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595005465 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 393595005466 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 393595005467 putative di-iron ligands [ion binding]; other site 393595005468 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_2; cd06216 393595005469 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 393595005470 FAD binding pocket [chemical binding]; other site 393595005471 FAD binding motif [chemical binding]; other site 393595005472 phosphate binding motif [ion binding]; other site 393595005473 beta-alpha-beta structure motif; other site 393595005474 NAD binding pocket [chemical binding]; other site 393595005475 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 393595005476 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 393595005477 catalytic loop [active] 393595005478 iron binding site [ion binding]; other site 393595005479 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 393595005480 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595005481 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 393595005482 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 393595005483 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 393595005484 active site residue [active] 393595005485 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 393595005486 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 393595005487 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 393595005488 Walker A/P-loop; other site 393595005489 ATP binding site [chemical binding]; other site 393595005490 Q-loop/lid; other site 393595005491 ABC transporter signature motif; other site 393595005492 Walker B; other site 393595005493 D-loop; other site 393595005494 H-loop/switch region; other site 393595005495 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 393595005496 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 393595005497 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 393595005498 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 393595005499 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 393595005500 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 393595005501 selenophosphate synthetase; Provisional; Region: PRK00943 393595005502 dimerization interface [polypeptide binding]; other site 393595005503 putative ATP binding site [chemical binding]; other site 393595005504 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 393595005505 putative active site [active] 393595005506 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 393595005507 TPR repeat; Region: TPR_11; pfam13414 393595005508 binding surface 393595005509 TPR motif; other site 393595005510 putative RNA methyltransferase; Provisional; Region: PRK10433 393595005511 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 393595005512 hypothetical protein; Provisional; Region: PRK11281 393595005513 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 393595005514 Mechanosensitive ion channel; Region: MS_channel; pfam00924 393595005515 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 393595005516 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 393595005517 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 393595005518 acyl-activating enzyme (AAE) consensus motif; other site 393595005519 putative AMP binding site [chemical binding]; other site 393595005520 putative active site [active] 393595005521 putative CoA binding site [chemical binding]; other site 393595005522 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 393595005523 hypothetical protein; Provisional; Region: PRK02135 393595005524 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 393595005525 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 393595005526 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 393595005527 ABC transporter ATPase component; Reviewed; Region: PRK11147 393595005528 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 393595005529 Walker A/P-loop; other site 393595005530 ATP binding site [chemical binding]; other site 393595005531 Q-loop/lid; other site 393595005532 ABC transporter signature motif; other site 393595005533 Walker B; other site 393595005534 D-loop; other site 393595005535 H-loop/switch region; other site 393595005536 ABC transporter; Region: ABC_tran_2; pfam12848 393595005537 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 393595005538 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 393595005539 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 393595005540 putative active site [active] 393595005541 Zn binding site [ion binding]; other site 393595005542 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 393595005543 Helix-hairpin-helix motif; Region: HHH; pfam00633 393595005544 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 393595005545 active site 393595005546 dimer interface [polypeptide binding]; other site 393595005547 tetratricopeptide repeat protein; Provisional; Region: PRK11788 393595005548 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 393595005549 binding surface 393595005550 TPR motif; other site 393595005551 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 393595005552 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 393595005553 IHF dimer interface [polypeptide binding]; other site 393595005554 IHF - DNA interface [nucleotide binding]; other site 393595005555 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 393595005556 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 393595005557 RNA binding site [nucleotide binding]; other site 393595005558 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 393595005559 RNA binding site [nucleotide binding]; other site 393595005560 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 393595005561 RNA binding site [nucleotide binding]; other site 393595005562 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 393595005563 RNA binding site [nucleotide binding]; other site 393595005564 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 393595005565 RNA binding site [nucleotide binding]; other site 393595005566 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 393595005567 RNA binding site [nucleotide binding]; other site 393595005568 cytidylate kinase; Provisional; Region: cmk; PRK00023 393595005569 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 393595005570 CMP-binding site; other site 393595005571 The sites determining sugar specificity; other site 393595005572 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 393595005573 prephenate dehydrogenase; Validated; Region: PRK08507 393595005574 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 393595005575 hinge; other site 393595005576 active site 393595005577 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 393595005578 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 393595005579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595005580 homodimer interface [polypeptide binding]; other site 393595005581 catalytic residue [active] 393595005582 Chorismate mutase type II; Region: CM_2; cl00693 393595005583 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 393595005584 Prephenate dehydratase; Region: PDT; pfam00800 393595005585 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 393595005586 putative L-Phe binding site [chemical binding]; other site 393595005587 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 393595005588 homodimer interface [polypeptide binding]; other site 393595005589 substrate-cofactor binding pocket; other site 393595005590 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595005591 catalytic residue [active] 393595005592 DNA gyrase subunit A; Validated; Region: PRK05560 393595005593 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 393595005594 CAP-like domain; other site 393595005595 active site 393595005596 primary dimer interface [polypeptide binding]; other site 393595005597 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 393595005598 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 393595005599 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 393595005600 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 393595005601 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 393595005602 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 393595005603 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 393595005604 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 393595005605 active site 393595005606 putative substrate binding pocket [chemical binding]; other site 393595005607 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 393595005608 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 393595005609 S-adenosylmethionine binding site [chemical binding]; other site 393595005610 phosphoglycolate phosphatase; Provisional; Region: PRK13222 393595005611 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 393595005612 motif II; other site 393595005613 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 393595005614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 393595005615 NAD(P) binding site [chemical binding]; other site 393595005616 active site 393595005617 ABC1 family; Region: ABC1; cl17513 393595005618 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 393595005619 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 393595005620 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 393595005621 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 393595005622 PilZ domain; Region: PilZ; pfam07238 393595005623 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 393595005624 nucleotide binding site/active site [active] 393595005625 HIT family signature motif; other site 393595005626 catalytic residue [active] 393595005627 hypothetical protein; Provisional; Region: PRK05170 393595005628 YcgL domain; Region: YcgL; pfam05166 393595005629 ribonuclease D; Region: rnd; TIGR01388 393595005630 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 393595005631 catalytic site [active] 393595005632 putative active site [active] 393595005633 putative substrate binding site [chemical binding]; other site 393595005634 HRDC domain; Region: HRDC; pfam00570 393595005635 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 393595005636 catalytic core [active] 393595005637 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 393595005638 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 393595005639 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595005640 active site 393595005641 recombination protein RecR; Reviewed; Region: recR; PRK00076 393595005642 RecR protein; Region: RecR; pfam02132 393595005643 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 393595005644 putative active site [active] 393595005645 putative metal-binding site [ion binding]; other site 393595005646 tetramer interface [polypeptide binding]; other site 393595005647 hypothetical protein; Validated; Region: PRK00153 393595005648 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 393595005649 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 393595005650 Walker A motif; other site 393595005651 ATP binding site [chemical binding]; other site 393595005652 Walker B motif; other site 393595005653 arginine finger; other site 393595005654 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 393595005655 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 393595005656 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 393595005657 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 393595005658 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 393595005659 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 393595005660 putative dimer interface [polypeptide binding]; other site 393595005661 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 393595005662 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 393595005663 Predicted transcriptional regulators [Transcription]; Region: COG1695 393595005664 Transcriptional regulator PadR-like family; Region: PadR; cl17335 393595005665 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 393595005666 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 393595005667 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 393595005668 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 393595005669 homodimer interface [polypeptide binding]; other site 393595005670 glycosyltransferase, MGT family; Region: MGT; TIGR01426 393595005671 active site 393595005672 TDP-binding site; other site 393595005673 acceptor substrate-binding pocket; other site 393595005674 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 393595005675 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 393595005676 acyl-activating enzyme (AAE) consensus motif; other site 393595005677 AMP binding site [chemical binding]; other site 393595005678 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 393595005679 HTH-like domain; Region: HTH_21; pfam13276 393595005680 DDE domain; Region: DDE_Tnp_IS240; pfam13610 393595005681 Integrase core domain; Region: rve; pfam00665 393595005682 Integrase core domain; Region: rve_3; pfam13683 393595005683 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 393595005684 Transposase; Region: HTH_Tnp_1; pfam01527 393595005685 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 393595005686 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 393595005687 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 393595005688 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 393595005689 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 393595005690 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 393595005691 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 393595005692 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 393595005693 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 393595005694 active site 393595005695 substrate binding pocket [chemical binding]; other site 393595005696 dimer interface [polypeptide binding]; other site 393595005697 carbon storage regulator; Provisional; Region: PRK01712 393595005698 aspartate kinase; Reviewed; Region: PRK06635 393595005699 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 393595005700 putative nucleotide binding site [chemical binding]; other site 393595005701 putative catalytic residues [active] 393595005702 putative Mg ion binding site [ion binding]; other site 393595005703 putative aspartate binding site [chemical binding]; other site 393595005704 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 393595005705 putative allosteric regulatory site; other site 393595005706 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 393595005707 putative allosteric regulatory residue; other site 393595005708 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 393595005709 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 393595005710 motif 1; other site 393595005711 active site 393595005712 motif 2; other site 393595005713 motif 3; other site 393595005714 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 393595005715 DHHA1 domain; Region: DHHA1; pfam02272 393595005716 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 393595005717 hypothetical protein; Provisional; Region: PRK10621 393595005718 recombination regulator RecX; Reviewed; Region: recX; PRK00117 393595005719 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 393595005720 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 393595005721 hexamer interface [polypeptide binding]; other site 393595005722 Walker A motif; other site 393595005723 ATP binding site [chemical binding]; other site 393595005724 Walker B motif; other site 393595005725 Competence-damaged protein; Region: CinA; pfam02464 393595005726 hypothetical protein; Provisional; Region: PRK12378 393595005727 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 393595005728 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 393595005729 Uncharacterized conserved protein [Function unknown]; Region: COG1432 393595005730 LabA_like proteins; Region: LabA; cd10911 393595005731 putative metal binding site [ion binding]; other site 393595005732 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 393595005733 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 393595005734 acyl-activating enzyme (AAE) consensus motif; other site 393595005735 active site 393595005736 AMP binding site [chemical binding]; other site 393595005737 substrate binding site [chemical binding]; other site 393595005738 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 393595005739 Transposase; Region: HTH_Tnp_1; pfam01527 393595005740 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 393595005741 MutS domain I; Region: MutS_I; pfam01624 393595005742 MutS domain II; Region: MutS_II; pfam05188 393595005743 MutS domain III; Region: MutS_III; pfam05192 393595005744 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 393595005745 Walker A/P-loop; other site 393595005746 ATP binding site [chemical binding]; other site 393595005747 Q-loop/lid; other site 393595005748 ABC transporter signature motif; other site 393595005749 Walker B; other site 393595005750 D-loop; other site 393595005751 H-loop/switch region; other site 393595005752 Ferredoxin [Energy production and conversion]; Region: COG1146 393595005753 4Fe-4S binding domain; Region: Fer4; cl02805 393595005754 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 393595005755 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 393595005756 putative binding surface; other site 393595005757 active site 393595005758 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 393595005759 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 393595005760 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 393595005761 Probable Catalytic site; other site 393595005762 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 393595005763 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 393595005764 FeS/SAM binding site; other site 393595005765 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 393595005766 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 393595005767 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 393595005768 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 393595005769 putative active site [active] 393595005770 catalytic site [active] 393595005771 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 393595005772 putative active site [active] 393595005773 catalytic site [active] 393595005774 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 393595005775 FeS/SAM binding site; other site 393595005776 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 393595005777 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 393595005778 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 393595005779 Family description; Region: UvrD_C_2; pfam13538 393595005780 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 393595005781 AAA domain; Region: AAA_30; pfam13604 393595005782 Family description; Region: UvrD_C_2; pfam13538 393595005783 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 393595005784 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 393595005785 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 393595005786 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 393595005787 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 393595005788 GTP/Mg2+ binding site [chemical binding]; other site 393595005789 G4 box; other site 393595005790 G5 box; other site 393595005791 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 393595005792 G1 box; other site 393595005793 Switch I region; other site 393595005794 G2 box; other site 393595005795 G3 box; other site 393595005796 Switch II region; other site 393595005797 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 393595005798 Part of AAA domain; Region: AAA_19; pfam13245 393595005799 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 393595005800 AAA domain; Region: AAA_12; pfam13087 393595005801 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 393595005802 putative active site [active] 393595005803 Fic family protein [Function unknown]; Region: COG3177 393595005804 Fic family protein [Function unknown]; Region: COG3177 393595005805 Fic/DOC family; Region: Fic; pfam02661 393595005806 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 393595005807 Mg2+ binding site [ion binding]; other site 393595005808 G-X-G motif; other site 393595005809 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 393595005810 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 393595005811 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 393595005812 HsdM N-terminal domain; Region: HsdM_N; pfam12161 393595005813 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 393595005814 Methyltransferase domain; Region: Methyltransf_26; pfam13659 393595005815 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 393595005816 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 393595005817 RmuC family; Region: RmuC; pfam02646 393595005818 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 393595005819 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 393595005820 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 393595005821 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 393595005822 ATP binding site [chemical binding]; other site 393595005823 putative Mg++ binding site [ion binding]; other site 393595005824 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 393595005825 nucleotide binding region [chemical binding]; other site 393595005826 ATP-binding site [chemical binding]; other site 393595005827 Predicted transcriptional regulator [Transcription]; Region: COG2378 393595005828 WYL domain; Region: WYL; pfam13280 393595005829 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 393595005830 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 393595005831 DNA binding residues [nucleotide binding] 393595005832 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 393595005833 IHF dimer interface [polypeptide binding]; other site 393595005834 IHF - DNA interface [nucleotide binding]; other site 393595005835 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 393595005836 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 393595005837 putative tRNA-binding site [nucleotide binding]; other site 393595005838 B3/4 domain; Region: B3_4; pfam03483 393595005839 tRNA synthetase B5 domain; Region: B5; smart00874 393595005840 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 393595005841 dimer interface [polypeptide binding]; other site 393595005842 motif 1; other site 393595005843 motif 3; other site 393595005844 motif 2; other site 393595005845 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 393595005846 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 393595005847 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 393595005848 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 393595005849 dimer interface [polypeptide binding]; other site 393595005850 motif 1; other site 393595005851 active site 393595005852 motif 2; other site 393595005853 motif 3; other site 393595005854 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 393595005855 23S rRNA binding site [nucleotide binding]; other site 393595005856 L21 binding site [polypeptide binding]; other site 393595005857 L13 binding site [polypeptide binding]; other site 393595005858 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 393595005859 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 393595005860 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 393595005861 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 393595005862 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 393595005863 MarR family; Region: MarR; pfam01047 393595005864 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 393595005865 Major Facilitator Superfamily; Region: MFS_1; pfam07690 393595005866 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 393595005867 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 393595005868 tetramer interface [polypeptide binding]; other site 393595005869 heme binding pocket [chemical binding]; other site 393595005870 NADPH binding site [chemical binding]; other site 393595005871 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 393595005872 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 393595005873 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 393595005874 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 393595005875 Walker A/P-loop; other site 393595005876 ATP binding site [chemical binding]; other site 393595005877 Q-loop/lid; other site 393595005878 ABC transporter signature motif; other site 393595005879 Walker B; other site 393595005880 D-loop; other site 393595005881 H-loop/switch region; other site 393595005882 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 393595005883 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 393595005884 Walker A/P-loop; other site 393595005885 ATP binding site [chemical binding]; other site 393595005886 Q-loop/lid; other site 393595005887 ABC transporter signature motif; other site 393595005888 Walker B; other site 393595005889 D-loop; other site 393595005890 H-loop/switch region; other site 393595005891 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 393595005892 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 393595005893 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 393595005894 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 393595005895 HlyD family secretion protein; Region: HlyD_3; pfam13437 393595005896 GMP synthase; Reviewed; Region: guaA; PRK00074 393595005897 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 393595005898 AMP/PPi binding site [chemical binding]; other site 393595005899 candidate oxyanion hole; other site 393595005900 catalytic triad [active] 393595005901 potential glutamine specificity residues [chemical binding]; other site 393595005902 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 393595005903 ATP Binding subdomain [chemical binding]; other site 393595005904 Ligand Binding sites [chemical binding]; other site 393595005905 Dimerization subdomain; other site 393595005906 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 393595005907 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 393595005908 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 393595005909 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 393595005910 active site 393595005911 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 393595005912 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 393595005913 generic binding surface II; other site 393595005914 generic binding surface I; other site 393595005915 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595005916 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 393595005917 dimer interface [polypeptide binding]; other site 393595005918 phosphorylation site [posttranslational modification] 393595005919 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 393595005920 ATP binding site [chemical binding]; other site 393595005921 Mg2+ binding site [ion binding]; other site 393595005922 G-X-G motif; other site 393595005923 Response regulator receiver domain; Region: Response_reg; pfam00072 393595005924 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595005925 active site 393595005926 phosphorylation site [posttranslational modification] 393595005927 intermolecular recognition site; other site 393595005928 dimerization interface [polypeptide binding]; other site 393595005929 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 393595005930 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 393595005931 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 393595005932 GTP-binding protein Der; Reviewed; Region: PRK00093 393595005933 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 393595005934 G1 box; other site 393595005935 GTP/Mg2+ binding site [chemical binding]; other site 393595005936 Switch I region; other site 393595005937 G2 box; other site 393595005938 Switch II region; other site 393595005939 G3 box; other site 393595005940 G4 box; other site 393595005941 G5 box; other site 393595005942 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 393595005943 G1 box; other site 393595005944 GTP/Mg2+ binding site [chemical binding]; other site 393595005945 Switch I region; other site 393595005946 G2 box; other site 393595005947 G3 box; other site 393595005948 Switch II region; other site 393595005949 G4 box; other site 393595005950 G5 box; other site 393595005951 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 393595005952 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 393595005953 Trp docking motif [polypeptide binding]; other site 393595005954 active site 393595005955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 393595005956 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 393595005957 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 393595005958 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 393595005959 dimer interface [polypeptide binding]; other site 393595005960 motif 1; other site 393595005961 active site 393595005962 motif 2; other site 393595005963 motif 3; other site 393595005964 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 393595005965 anticodon binding site; other site 393595005966 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 393595005967 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 393595005968 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 393595005969 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 393595005970 non-specific DNA binding site [nucleotide binding]; other site 393595005971 salt bridge; other site 393595005972 sequence-specific DNA binding site [nucleotide binding]; other site 393595005973 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 393595005974 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 393595005975 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 393595005976 TPR motif; other site 393595005977 binding surface 393595005978 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 393595005979 binding surface 393595005980 TPR motif; other site 393595005981 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 393595005982 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 393595005983 FeS/SAM binding site; other site 393595005984 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 393595005985 active site 393595005986 multimer interface [polypeptide binding]; other site 393595005987 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 393595005988 putative ABC transporter; Region: ycf24; CHL00085 393595005989 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 393595005990 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 393595005991 Walker A/P-loop; other site 393595005992 ATP binding site [chemical binding]; other site 393595005993 Q-loop/lid; other site 393595005994 ABC transporter signature motif; other site 393595005995 Walker B; other site 393595005996 D-loop; other site 393595005997 H-loop/switch region; other site 393595005998 FeS assembly protein SufD; Region: sufD; TIGR01981 393595005999 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 393595006000 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 393595006001 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 393595006002 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 393595006003 catalytic residue [active] 393595006004 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 393595006005 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 393595006006 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 393595006007 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 393595006008 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 393595006009 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 393595006010 catalytic residue [active] 393595006011 Transcriptional regulator; Region: Rrf2; cl17282 393595006012 Rrf2 family protein; Region: rrf2_super; TIGR00738 393595006013 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 393595006014 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 393595006015 active site 393595006016 dimerization interface [polypeptide binding]; other site 393595006017 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 393595006018 active site 393595006019 Transcriptional activator [Transcription]; Region: ChrR; COG3806 393595006020 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 393595006021 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 393595006022 Repair protein; Region: Repair_PSII; cl01535 393595006023 Repair protein; Region: Repair_PSII; pfam04536 393595006024 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 393595006025 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 393595006026 GIY-YIG motif/motif A; other site 393595006027 putative active site [active] 393595006028 putative metal binding site [ion binding]; other site 393595006029 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 393595006030 HopJ type III effector protein; Region: HopJ; pfam08888 393595006031 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 393595006032 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 393595006033 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 393595006034 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 393595006035 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 393595006036 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 393595006037 dimer interface [polypeptide binding]; other site 393595006038 conserved gate region; other site 393595006039 putative PBP binding loops; other site 393595006040 ABC-ATPase subunit interface; other site 393595006041 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 393595006042 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 393595006043 Walker A/P-loop; other site 393595006044 ATP binding site [chemical binding]; other site 393595006045 Q-loop/lid; other site 393595006046 ABC transporter signature motif; other site 393595006047 Walker B; other site 393595006048 D-loop; other site 393595006049 H-loop/switch region; other site 393595006050 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 393595006051 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 393595006052 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 393595006053 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 393595006054 urea carboxylase; Region: urea_carbox; TIGR02712 393595006055 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 393595006056 ATP-grasp domain; Region: ATP-grasp_4; cl17255 393595006057 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 393595006058 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 393595006059 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 393595006060 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 393595006061 carboxyltransferase (CT) interaction site; other site 393595006062 biotinylation site [posttranslational modification]; other site 393595006063 ATP-dependent helicase HepA; Validated; Region: PRK04914 393595006064 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 393595006065 ATP binding site [chemical binding]; other site 393595006066 putative Mg++ binding site [ion binding]; other site 393595006067 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 393595006068 nucleotide binding region [chemical binding]; other site 393595006069 ATP-binding site [chemical binding]; other site 393595006070 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 393595006071 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 393595006072 putative hydrolase; Provisional; Region: PRK11460 393595006073 nucleophilic elbow; other site 393595006074 catalytic triad; other site 393595006075 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 393595006076 Subunit III/VIIa interface [polypeptide binding]; other site 393595006077 Phospholipid binding site [chemical binding]; other site 393595006078 Subunit I/III interface [polypeptide binding]; other site 393595006079 Subunit III/VIb interface [polypeptide binding]; other site 393595006080 Subunit III/VIa interface; other site 393595006081 Subunit III/Vb interface [polypeptide binding]; other site 393595006082 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 393595006083 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 393595006084 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 393595006085 Subunit I/III interface [polypeptide binding]; other site 393595006086 D-pathway; other site 393595006087 Subunit I/VIIc interface [polypeptide binding]; other site 393595006088 Subunit I/IV interface [polypeptide binding]; other site 393595006089 Subunit I/II interface [polypeptide binding]; other site 393595006090 Low-spin heme (heme a) binding site [chemical binding]; other site 393595006091 Subunit I/VIIa interface [polypeptide binding]; other site 393595006092 Subunit I/VIa interface [polypeptide binding]; other site 393595006093 Dimer interface; other site 393595006094 Putative water exit pathway; other site 393595006095 Binuclear center (heme a3/CuB) [ion binding]; other site 393595006096 K-pathway; other site 393595006097 Subunit I/Vb interface [polypeptide binding]; other site 393595006098 Putative proton exit pathway; other site 393595006099 Subunit I/VIb interface; other site 393595006100 Subunit I/VIc interface [polypeptide binding]; other site 393595006101 Electron transfer pathway; other site 393595006102 Subunit I/VIIIb interface [polypeptide binding]; other site 393595006103 Subunit I/VIIb interface [polypeptide binding]; other site 393595006104 cytochrome c oxidase subunit II; Validated; Region: COX2; MTH00023 393595006105 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 393595006106 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 393595006107 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 393595006108 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 393595006109 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 393595006110 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 393595006111 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 393595006112 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 393595006113 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 393595006114 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 393595006115 UbiA prenyltransferase family; Region: UbiA; pfam01040 393595006116 Protein of unknown function (DUF962); Region: DUF962; cl01879 393595006117 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 393595006118 Peptidase family M48; Region: Peptidase_M48; cl12018 393595006119 Protein of unknown function, DUF482; Region: DUF482; pfam04339 393595006120 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 393595006121 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 393595006122 DNA-binding site [nucleotide binding]; DNA binding site 393595006123 RNA-binding motif; other site 393595006124 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 393595006125 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 393595006126 Na binding site [ion binding]; other site 393595006127 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 393595006128 BNR repeat-like domain; Region: BNR_2; pfam13088 393595006129 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 393595006130 putative lipid binding site [chemical binding]; other site 393595006131 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 393595006132 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 393595006133 putative acyl-acceptor binding pocket; other site 393595006134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 393595006135 short chain dehydrogenase; Provisional; Region: PRK05650 393595006136 NAD(P) binding site [chemical binding]; other site 393595006137 active site 393595006138 Protein of unknown function (DUF938); Region: DUF938; pfam06080 393595006139 helicase 45; Provisional; Region: PTZ00424 393595006140 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 393595006141 ATP binding site [chemical binding]; other site 393595006142 Mg++ binding site [ion binding]; other site 393595006143 motif III; other site 393595006144 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 393595006145 nucleotide binding region [chemical binding]; other site 393595006146 ATP-binding site [chemical binding]; other site 393595006147 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 393595006148 active site residue [active] 393595006149 OmpW family; Region: OmpW; cl17427 393595006150 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 393595006151 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 393595006152 putative active site [active] 393595006153 PhoH-like protein; Region: PhoH; pfam02562 393595006154 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 393595006155 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 393595006156 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 393595006157 putative active site [active] 393595006158 Zn binding site [ion binding]; other site 393595006159 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 393595006160 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 393595006161 putative catalytic site [active] 393595006162 putative metal binding site [ion binding]; other site 393595006163 putative phosphate binding site [ion binding]; other site 393595006164 Protein of unknown function (DUF461); Region: DUF461; pfam04314 393595006165 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 393595006166 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 393595006167 Cu(I) binding site [ion binding]; other site 393595006168 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 393595006169 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 393595006170 TRAM domain; Region: TRAM; pfam01938 393595006171 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 393595006172 PhoH-like protein; Region: PhoH; pfam02562 393595006173 metal-binding heat shock protein; Provisional; Region: PRK00016 393595006174 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 393595006175 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 393595006176 Transporter associated domain; Region: CorC_HlyC; smart01091 393595006177 Rhomboid family; Region: Rhomboid; cl11446 393595006178 B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction; Region: BBOX; cl00034 393595006179 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 393595006180 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 393595006181 putative active site [active] 393595006182 catalytic triad [active] 393595006183 putative dimer interface [polypeptide binding]; other site 393595006184 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 393595006185 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 393595006186 high affinity sulphate transporter 1; Region: sulP; TIGR00815 393595006187 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 393595006188 Sulfate transporter family; Region: Sulfate_transp; pfam00916 393595006189 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 393595006190 Putative phosphatase (DUF442); Region: DUF442; cl17385 393595006191 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 393595006192 high affinity sulphate transporter 1; Region: sulP; TIGR00815 393595006193 Sulfate transporter family; Region: Sulfate_transp; pfam00916 393595006194 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 393595006195 Uncharacterized conserved protein [Function unknown]; Region: COG1434 393595006196 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 393595006197 putative active site [active] 393595006198 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 393595006199 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 393595006200 HIGH motif; other site 393595006201 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 393595006202 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 393595006203 active site 393595006204 KMSKS motif; other site 393595006205 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 393595006206 tRNA binding surface [nucleotide binding]; other site 393595006207 Lipopolysaccharide-assembly; Region: LptE; pfam04390 393595006208 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 393595006209 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 393595006210 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 393595006211 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 393595006212 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 393595006213 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 393595006214 putative catalytic cysteine [active] 393595006215 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 393595006216 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 393595006217 active site 393595006218 (T/H)XGH motif; other site 393595006219 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 393595006220 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 393595006221 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 393595006222 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 393595006223 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 393595006224 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 393595006225 Transglycosylase SLT domain; Region: SLT_2; pfam13406 393595006226 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 393595006227 N-acetyl-D-glucosamine binding site [chemical binding]; other site 393595006228 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 393595006229 rare lipoprotein A; Region: rlpA; TIGR00413 393595006230 Sporulation related domain; Region: SPOR; pfam05036 393595006231 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 393595006232 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 393595006233 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 393595006234 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 393595006235 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 393595006236 homodimer interface [polypeptide binding]; other site 393595006237 substrate-cofactor binding pocket; other site 393595006238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595006239 catalytic residue [active] 393595006240 Protein of unknown function (DUF493); Region: DUF493; pfam04359 393595006241 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 393595006242 lipoyl synthase; Provisional; Region: PRK05481 393595006243 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 393595006244 FeS/SAM binding site; other site 393595006245 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 393595006246 NlpE N-terminal domain; Region: NlpE; pfam04170 393595006247 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 393595006248 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 393595006249 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 393595006250 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 393595006251 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 393595006252 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 393595006253 aromatic acid decarboxylase; Validated; Region: PRK05920 393595006254 Flavoprotein; Region: Flavoprotein; pfam02441 393595006255 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 393595006256 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 393595006257 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 393595006258 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 393595006259 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 393595006260 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 393595006261 lipase chaperone; Provisional; Region: PRK01294 393595006262 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 393595006263 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 393595006264 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 393595006265 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 393595006266 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 393595006267 Walker A motif; other site 393595006268 ATP binding site [chemical binding]; other site 393595006269 Walker B motif; other site 393595006270 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 393595006271 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 393595006272 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 393595006273 multimer interface [polypeptide binding]; other site 393595006274 active site 393595006275 catalytic triad [active] 393595006276 dimer interface [polypeptide binding]; other site 393595006277 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 393595006278 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 393595006279 Walker A/P-loop; other site 393595006280 ATP binding site [chemical binding]; other site 393595006281 Q-loop/lid; other site 393595006282 ABC transporter signature motif; other site 393595006283 Walker B; other site 393595006284 D-loop; other site 393595006285 H-loop/switch region; other site 393595006286 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 393595006287 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 393595006288 Walker A/P-loop; other site 393595006289 ATP binding site [chemical binding]; other site 393595006290 Q-loop/lid; other site 393595006291 ABC transporter signature motif; other site 393595006292 Walker B; other site 393595006293 D-loop; other site 393595006294 H-loop/switch region; other site 393595006295 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 393595006296 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 393595006297 TM-ABC transporter signature motif; other site 393595006298 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 393595006299 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 393595006300 TM-ABC transporter signature motif; other site 393595006301 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 393595006302 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 393595006303 putative ligand binding site [chemical binding]; other site 393595006304 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 393595006305 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 393595006306 Na binding site [ion binding]; other site 393595006307 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595006308 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 393595006309 dimer interface [polypeptide binding]; other site 393595006310 phosphorylation site [posttranslational modification] 393595006311 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 393595006312 ATP binding site [chemical binding]; other site 393595006313 Mg2+ binding site [ion binding]; other site 393595006314 G-X-G motif; other site 393595006315 Response regulator receiver domain; Region: Response_reg; pfam00072 393595006316 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595006317 active site 393595006318 phosphorylation site [posttranslational modification] 393595006319 intermolecular recognition site; other site 393595006320 dimerization interface [polypeptide binding]; other site 393595006321 Response regulator receiver domain; Region: Response_reg; pfam00072 393595006322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595006323 active site 393595006324 phosphorylation site [posttranslational modification] 393595006325 intermolecular recognition site; other site 393595006326 dimerization interface [polypeptide binding]; other site 393595006327 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 393595006328 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 393595006329 DNA binding residues [nucleotide binding] 393595006330 dimerization interface [polypeptide binding]; other site 393595006331 6-phosphofructokinase; Provisional; Region: PRK14072 393595006332 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 393595006333 active site 393595006334 ADP/pyrophosphate binding site [chemical binding]; other site 393595006335 dimerization interface [polypeptide binding]; other site 393595006336 allosteric effector site; other site 393595006337 fructose-1,6-bisphosphate binding site; other site 393595006338 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 393595006339 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 393595006340 active site 393595006341 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 393595006342 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 393595006343 active site residue [active] 393595006344 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 393595006345 dimer interface [polypeptide binding]; other site 393595006346 substrate binding site [chemical binding]; other site 393595006347 metal binding sites [ion binding]; metal-binding site 393595006348 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595006349 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 393595006350 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595006351 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 393595006352 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 393595006353 Methyltransferase domain; Region: Methyltransf_23; pfam13489 393595006354 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 393595006355 S-adenosylmethionine binding site [chemical binding]; other site 393595006356 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 393595006357 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 393595006358 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595006359 HAMP domain; Region: HAMP; pfam00672 393595006360 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 393595006361 dimer interface [polypeptide binding]; other site 393595006362 phosphorylation site [posttranslational modification] 393595006363 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 393595006364 ATP binding site [chemical binding]; other site 393595006365 Mg2+ binding site [ion binding]; other site 393595006366 G-X-G motif; other site 393595006367 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 393595006368 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595006369 active site 393595006370 phosphorylation site [posttranslational modification] 393595006371 intermolecular recognition site; other site 393595006372 dimerization interface [polypeptide binding]; other site 393595006373 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 393595006374 DNA binding site [nucleotide binding] 393595006375 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 393595006376 ApbE family; Region: ApbE; pfam02424 393595006377 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 393595006378 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 393595006379 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 393595006380 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 393595006381 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 393595006382 catalytic residues [active] 393595006383 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 393595006384 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 393595006385 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 393595006386 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 393595006387 DsbD alpha interface [polypeptide binding]; other site 393595006388 catalytic residues [active] 393595006389 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 393595006390 Dehydroquinase class II; Region: DHquinase_II; pfam01220 393595006391 trimer interface [polypeptide binding]; other site 393595006392 active site 393595006393 dimer interface [polypeptide binding]; other site 393595006394 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 393595006395 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 393595006396 carboxyltransferase (CT) interaction site; other site 393595006397 biotinylation site [posttranslational modification]; other site 393595006398 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 393595006399 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 393595006400 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 393595006401 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 393595006402 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 393595006403 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 393595006404 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 393595006405 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 393595006406 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 393595006407 FMN binding site [chemical binding]; other site 393595006408 active site 393595006409 catalytic residues [active] 393595006410 substrate binding site [chemical binding]; other site 393595006411 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 393595006412 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 393595006413 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 393595006414 purine monophosphate binding site [chemical binding]; other site 393595006415 dimer interface [polypeptide binding]; other site 393595006416 putative catalytic residues [active] 393595006417 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 393595006418 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 393595006419 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 393595006420 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 393595006421 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 393595006422 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 393595006423 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 393595006424 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 393595006425 ligand binding site [chemical binding]; other site 393595006426 flexible hinge region; other site 393595006427 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 393595006428 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 393595006429 ligand binding site [chemical binding]; other site 393595006430 flexible hinge region; other site 393595006431 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 393595006432 active site residue [active] 393595006433 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 393595006434 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 393595006435 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595006436 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 393595006437 dimer interface [polypeptide binding]; other site 393595006438 phosphorylation site [posttranslational modification] 393595006439 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 393595006440 ATP binding site [chemical binding]; other site 393595006441 Mg2+ binding site [ion binding]; other site 393595006442 G-X-G motif; other site 393595006443 Response regulator receiver domain; Region: Response_reg; pfam00072 393595006444 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595006445 active site 393595006446 phosphorylation site [posttranslational modification] 393595006447 intermolecular recognition site; other site 393595006448 dimerization interface [polypeptide binding]; other site 393595006449 Response regulator receiver domain; Region: Response_reg; pfam00072 393595006450 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595006451 active site 393595006452 phosphorylation site [posttranslational modification] 393595006453 intermolecular recognition site; other site 393595006454 dimerization interface [polypeptide binding]; other site 393595006455 Ycf46; Provisional; Region: ycf46; CHL00195 393595006456 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 393595006457 Walker A motif; other site 393595006458 ATP binding site [chemical binding]; other site 393595006459 Walker B motif; other site 393595006460 arginine finger; other site 393595006461 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 393595006462 diiron binding motif [ion binding]; other site 393595006463 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 393595006464 OsmC-like protein; Region: OsmC; cl00767 393595006465 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 393595006466 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 393595006467 ligand binding site [chemical binding]; other site 393595006468 flexible hinge region; other site 393595006469 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 393595006470 putative switch regulator; other site 393595006471 non-specific DNA interactions [nucleotide binding]; other site 393595006472 DNA binding site [nucleotide binding] 393595006473 sequence specific DNA binding site [nucleotide binding]; other site 393595006474 putative cAMP binding site [chemical binding]; other site 393595006475 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 393595006476 active site 393595006477 ribulose/triose binding site [chemical binding]; other site 393595006478 phosphate binding site [ion binding]; other site 393595006479 substrate (anthranilate) binding pocket [chemical binding]; other site 393595006480 product (indole) binding pocket [chemical binding]; other site 393595006481 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 393595006482 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 393595006483 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 393595006484 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 393595006485 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 393595006486 glutamine binding [chemical binding]; other site 393595006487 catalytic triad [active] 393595006488 anthranilate synthase component I; Provisional; Region: PRK13565 393595006489 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 393595006490 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 393595006491 MOSC domain; Region: MOSC; pfam03473 393595006492 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 393595006493 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 393595006494 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 393595006495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595006496 active site 393595006497 phosphorylation site [posttranslational modification] 393595006498 intermolecular recognition site; other site 393595006499 dimerization interface [polypeptide binding]; other site 393595006500 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 393595006501 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595006502 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 393595006503 ATP binding site [chemical binding]; other site 393595006504 Mg2+ binding site [ion binding]; other site 393595006505 G-X-G motif; other site 393595006506 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 393595006507 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 393595006508 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 393595006509 Subunit I/III interface [polypeptide binding]; other site 393595006510 Subunit III/IV interface [polypeptide binding]; other site 393595006511 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 393595006512 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 393595006513 D-pathway; other site 393595006514 Putative ubiquinol binding site [chemical binding]; other site 393595006515 Low-spin heme (heme b) binding site [chemical binding]; other site 393595006516 Putative water exit pathway; other site 393595006517 Binuclear center (heme o3/CuB) [ion binding]; other site 393595006518 K-pathway; other site 393595006519 Putative proton exit pathway; other site 393595006520 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 393595006521 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 393595006522 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 393595006523 metabolite-proton symporter; Region: 2A0106; TIGR00883 393595006524 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 393595006525 putative substrate translocation pore; other site 393595006526 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 393595006527 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 393595006528 putative active site [active] 393595006529 putative FMN binding site [chemical binding]; other site 393595006530 putative substrate binding site [chemical binding]; other site 393595006531 putative catalytic residue [active] 393595006532 Predicted transcriptional regulators [Transcription]; Region: COG1733 393595006533 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 393595006534 NlpC/P60 family; Region: NLPC_P60; pfam00877 393595006535 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 393595006536 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 393595006537 substrate binding site [chemical binding]; other site 393595006538 hexamer interface [polypeptide binding]; other site 393595006539 metal binding site [ion binding]; metal-binding site 393595006540 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 393595006541 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 393595006542 Substrate binding site; other site 393595006543 metal-binding site 393595006544 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 393595006545 Phosphotransferase enzyme family; Region: APH; pfam01636 393595006546 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 393595006547 OstA-like protein; Region: OstA; cl00844 393595006548 Organic solvent tolerance protein; Region: OstA_C; pfam04453 393595006549 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 393595006550 SurA N-terminal domain; Region: SurA_N; pfam09312 393595006551 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 393595006552 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 393595006553 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 393595006554 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 393595006555 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 393595006556 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 393595006557 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 393595006558 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 393595006559 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 393595006560 active site 393595006561 metal binding site [ion binding]; metal-binding site 393595006562 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 393595006563 EamA-like transporter family; Region: EamA; pfam00892 393595006564 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 393595006565 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 393595006566 active site 393595006567 NTP binding site [chemical binding]; other site 393595006568 metal binding triad [ion binding]; metal-binding site 393595006569 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 393595006570 pteridine reductase; Provisional; Region: PRK09135 393595006571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 393595006572 NAD(P) binding site [chemical binding]; other site 393595006573 active site 393595006574 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 393595006575 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 393595006576 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 393595006577 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 393595006578 catalytic center binding site [active] 393595006579 ATP binding site [chemical binding]; other site 393595006580 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 393595006581 homooctamer interface [polypeptide binding]; other site 393595006582 active site 393595006583 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 393595006584 UGMP family protein; Validated; Region: PRK09604 393595006585 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 393595006586 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 393595006587 Yqey-like protein; Region: YqeY; pfam09424 393595006588 DNA primase, catalytic core; Region: dnaG; TIGR01391 393595006589 CHC2 zinc finger; Region: zf-CHC2; pfam01807 393595006590 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 393595006591 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 393595006592 active site 393595006593 metal binding site [ion binding]; metal-binding site 393595006594 interdomain interaction site; other site 393595006595 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 393595006596 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 393595006597 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 393595006598 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 393595006599 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 393595006600 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 393595006601 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 393595006602 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 393595006603 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 393595006604 DNA binding residues [nucleotide binding] 393595006605 integrase; Provisional; Region: int; PHA02601 393595006606 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 393595006607 active site 393595006608 DNA binding site [nucleotide binding] 393595006609 Int/Topo IB signature motif; other site 393595006610 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 393595006611 Type IV secretion system proteins; Region: T4SS; pfam07996 393595006612 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 393595006613 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 393595006614 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 393595006615 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 393595006616 P-loop; other site 393595006617 Magnesium ion binding site [ion binding]; other site 393595006618 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 393595006619 ParB-like nuclease domain; Region: ParBc; pfam02195 393595006620 KorB domain; Region: KorB; pfam08535 393595006621 KorB C-terminal beta-barrel domain; Region: KorB_C; pfam06613 393595006622 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 393595006623 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 393595006624 Transglycosylase; Region: Transgly; pfam00912 393595006625 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 393595006626 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 393595006627 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 393595006628 DNA methylase; Region: N6_N4_Mtase; cl17433 393595006629 Methyltransferase domain; Region: Methyltransf_26; pfam13659 393595006630 putative transposase OrfB; Reviewed; Region: PHA02517 393595006631 HTH-like domain; Region: HTH_21; pfam13276 393595006632 Integrase core domain; Region: rve; pfam00665 393595006633 Integrase core domain; Region: rve_2; pfam13333 393595006634 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 393595006635 Transposase; Region: HTH_Tnp_1; pfam01527 393595006636 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 393595006637 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 393595006638 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 393595006639 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 393595006640 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 393595006641 nucleotide binding site [chemical binding]; other site 393595006642 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 393595006643 nucleotide binding site [chemical binding]; other site 393595006644 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 393595006645 GIY-YIG motif/motif A; other site 393595006646 putative active site [active] 393595006647 putative metal binding site [ion binding]; other site 393595006648 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 393595006649 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 393595006650 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 393595006651 ATP binding site [chemical binding]; other site 393595006652 Mg++ binding site [ion binding]; other site 393595006653 motif III; other site 393595006654 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 393595006655 nucleotide binding region [chemical binding]; other site 393595006656 ATP-binding site [chemical binding]; other site 393595006657 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 393595006658 putative RNA binding site [nucleotide binding]; other site 393595006659 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 393595006660 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 393595006661 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 393595006662 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 393595006663 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 393595006664 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 393595006665 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 393595006666 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 393595006667 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 393595006668 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 393595006669 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 393595006670 N-terminal plug; other site 393595006671 ligand-binding site [chemical binding]; other site 393595006672 Condensation domain; Region: Condensation; pfam00668 393595006673 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 393595006674 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 393595006675 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 393595006676 acyl-activating enzyme (AAE) consensus motif; other site 393595006677 AMP binding site [chemical binding]; other site 393595006678 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 393595006679 Condensation domain; Region: Condensation; pfam00668 393595006680 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 393595006681 Thioesterase; Region: PKS_TE; smart00824 393595006682 Condensation domain; Region: Condensation; pfam00668 393595006683 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 393595006684 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 393595006685 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 393595006686 acyl-activating enzyme (AAE) consensus motif; other site 393595006687 AMP binding site [chemical binding]; other site 393595006688 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 393595006689 Condensation domain; Region: Condensation; pfam00668 393595006690 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 393595006691 Condensation domain; Region: Condensation; pfam00668 393595006692 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 393595006693 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 393595006694 acyl-activating enzyme (AAE) consensus motif; other site 393595006695 AMP binding site [chemical binding]; other site 393595006696 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 393595006697 Condensation domain; Region: Condensation; pfam00668 393595006698 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 393595006699 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 393595006700 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 393595006701 acyl-activating enzyme (AAE) consensus motif; other site 393595006702 AMP binding site [chemical binding]; other site 393595006703 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 393595006704 MbtH-like protein; Region: MbtH; smart00923 393595006705 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 393595006706 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 393595006707 Walker A/P-loop; other site 393595006708 ATP binding site [chemical binding]; other site 393595006709 Q-loop/lid; other site 393595006710 ABC transporter signature motif; other site 393595006711 Walker B; other site 393595006712 D-loop; other site 393595006713 H-loop/switch region; other site 393595006714 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595006715 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595006716 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 393595006717 Endonuclease I; Region: Endonuclease_1; cl01003 393595006718 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 393595006719 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 393595006720 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595006721 active site 393595006722 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 393595006723 glutamate dehydrogenase; Provisional; Region: PRK09414 393595006724 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 393595006725 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 393595006726 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 393595006727 NAD(P) binding site [chemical binding]; other site 393595006728 Protein of unknown function (DUF454); Region: DUF454; cl01063 393595006729 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 393595006730 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 393595006731 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595006732 active site 393595006733 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 393595006734 Uncharacterized conserved protein [Function unknown]; Region: COG2835 393595006735 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 393595006736 dimerization interface [polypeptide binding]; other site 393595006737 substrate binding site [chemical binding]; other site 393595006738 active site 393595006739 calcium binding site [ion binding]; other site 393595006740 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 393595006741 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595006742 Helix-turn-helix domain; Region: HTH_18; pfam12833 393595006743 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595006744 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 393595006745 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 393595006746 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 393595006747 short chain dehydrogenase; Provisional; Region: PRK08267 393595006748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 393595006749 NAD(P) binding site [chemical binding]; other site 393595006750 active site 393595006751 3D domain; Region: 3D; cl01439 393595006752 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 393595006753 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 393595006754 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 393595006755 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 393595006756 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 393595006757 putative NAD(P) binding site [chemical binding]; other site 393595006758 active site 393595006759 Protein of unknown function, DUF479; Region: DUF479; pfam04336 393595006760 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 393595006761 nucleotide binding site/active site [active] 393595006762 HIT family signature motif; other site 393595006763 catalytic residue [active] 393595006764 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 393595006765 Transcriptional regulator [Transcription]; Region: LysR; COG0583 393595006766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595006767 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 393595006768 substrate binding pocket [chemical binding]; other site 393595006769 dimerization interface [polypeptide binding]; other site 393595006770 Arc-like DNA binding domain; Region: Arc; pfam03869 393595006771 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 393595006772 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 393595006773 metal binding site [ion binding]; metal-binding site 393595006774 active site 393595006775 I-site; other site 393595006776 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 393595006777 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 393595006778 heme-binding site [chemical binding]; other site 393595006779 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 393595006780 FAD binding pocket [chemical binding]; other site 393595006781 FAD binding motif [chemical binding]; other site 393595006782 phosphate binding motif [ion binding]; other site 393595006783 beta-alpha-beta structure motif; other site 393595006784 NAD binding pocket [chemical binding]; other site 393595006785 Heme binding pocket [chemical binding]; other site 393595006786 Transcriptional regulator; Region: Rrf2; cl17282 393595006787 Predicted transcriptional regulator [Transcription]; Region: COG1959 393595006788 Transcriptional regulator [Transcription]; Region: LysR; COG0583 393595006789 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595006790 LysR substrate binding domain; Region: LysR_substrate; pfam03466 393595006791 dimerization interface [polypeptide binding]; other site 393595006792 Flavodoxin; Region: Flavodoxin_1; pfam00258 393595006793 FAD binding domain; Region: FAD_binding_1; pfam00667 393595006794 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 393595006795 FAD binding pocket [chemical binding]; other site 393595006796 conserved FAD binding motif [chemical binding]; other site 393595006797 phosphate binding motif [ion binding]; other site 393595006798 beta-alpha-beta structure motif; other site 393595006799 sulfite reductase subunit beta; Provisional; Region: PRK13504 393595006800 sulfite reductase subunit beta; Provisional; Region: PRK13504 393595006801 DsrE/DsrF-like family; Region: DrsE; pfam02635 393595006802 DsrE/DsrF-like family; Region: DrsE; cl00672 393595006803 DsrH like protein; Region: DsrH; cl17347 393595006804 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 393595006805 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 393595006806 FMN binding site [chemical binding]; other site 393595006807 substrate binding site [chemical binding]; other site 393595006808 putative catalytic residue [active] 393595006809 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 393595006810 Peptidase family M23; Region: Peptidase_M23; pfam01551 393595006811 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 393595006812 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 393595006813 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 393595006814 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 393595006815 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 393595006816 active site 393595006817 dimer interface [polypeptide binding]; other site 393595006818 motif 1; other site 393595006819 motif 2; other site 393595006820 motif 3; other site 393595006821 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 393595006822 anticodon binding site; other site 393595006823 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 393595006824 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 393595006825 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 393595006826 active site 393595006827 HIGH motif; other site 393595006828 nucleotide binding site [chemical binding]; other site 393595006829 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 393595006830 KMSKS motif; other site 393595006831 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 393595006832 tRNA binding surface [nucleotide binding]; other site 393595006833 anticodon binding site; other site 393595006834 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 393595006835 hydrophobic ligand binding site; other site 393595006836 Haemolytic domain; Region: Haemolytic; pfam01809 393595006837 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 393595006838 N-terminal plug; other site 393595006839 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 393595006840 ligand-binding site [chemical binding]; other site 393595006841 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 393595006842 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 393595006843 Ligand Binding Site [chemical binding]; other site 393595006844 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 393595006845 Na binding site [ion binding]; other site 393595006846 putative GTP cyclohydrolase; Provisional; Region: PRK13674 393595006847 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 393595006848 TPR motif; other site 393595006849 TPR repeat; Region: TPR_11; pfam13414 393595006850 binding surface 393595006851 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 393595006852 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 393595006853 DctM-like transporters; Region: DctM; pfam06808 393595006854 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 393595006855 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 393595006856 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 393595006857 MarR family; Region: MarR; pfam01047 393595006858 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 393595006859 Coenzyme A binding pocket [chemical binding]; other site 393595006860 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 393595006861 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 393595006862 inhibitor-cofactor binding pocket; inhibition site 393595006863 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595006864 catalytic residue [active] 393595006865 Ectoine synthase; Region: Ectoine_synth; pfam06339 393595006866 Porin subfamily; Region: Porin_2; pfam02530 393595006867 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 393595006868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595006869 active site 393595006870 phosphorylation site [posttranslational modification] 393595006871 intermolecular recognition site; other site 393595006872 dimerization interface [polypeptide binding]; other site 393595006873 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 393595006874 DNA binding residues [nucleotide binding] 393595006875 dimerization interface [polypeptide binding]; other site 393595006876 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 393595006877 Na binding site [ion binding]; other site 393595006878 PAS fold; Region: PAS_7; pfam12860 393595006879 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 393595006880 putative active site [active] 393595006881 heme pocket [chemical binding]; other site 393595006882 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595006883 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 393595006884 dimer interface [polypeptide binding]; other site 393595006885 phosphorylation site [posttranslational modification] 393595006886 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 393595006887 ATP binding site [chemical binding]; other site 393595006888 Mg2+ binding site [ion binding]; other site 393595006889 G-X-G motif; other site 393595006890 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 393595006891 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595006892 active site 393595006893 phosphorylation site [posttranslational modification] 393595006894 intermolecular recognition site; other site 393595006895 dimerization interface [polypeptide binding]; other site 393595006896 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 393595006897 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 393595006898 active site 393595006899 catalytic site [active] 393595006900 substrate binding site [chemical binding]; other site 393595006901 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 393595006902 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 393595006903 ligand binding site [chemical binding]; other site 393595006904 flexible hinge region; other site 393595006905 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP...; Region: CBS_pair_CAP-ED_DUF294_assoc_bac; cd04589 393595006906 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 393595006907 metal binding triad; other site 393595006908 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 393595006909 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 393595006910 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 393595006911 Na binding site [ion binding]; other site 393595006912 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 393595006913 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 393595006914 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 393595006915 FMN binding site [chemical binding]; other site 393595006916 active site 393595006917 catalytic residues [active] 393595006918 substrate binding site [chemical binding]; other site 393595006919 Gram-negative porin; Region: Porin_4; pfam13609 393595006920 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 393595006921 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 393595006922 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 393595006923 substrate binding pocket [chemical binding]; other site 393595006924 chain length determination region; other site 393595006925 substrate-Mg2+ binding site; other site 393595006926 catalytic residues [active] 393595006927 aspartate-rich region 1; other site 393595006928 active site lid residues [active] 393595006929 aspartate-rich region 2; other site 393595006930 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 393595006931 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 393595006932 TPP-binding site; other site 393595006933 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 393595006934 PYR/PP interface [polypeptide binding]; other site 393595006935 dimer interface [polypeptide binding]; other site 393595006936 TPP binding site [chemical binding]; other site 393595006937 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 393595006938 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 393595006939 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 393595006940 metal binding site [ion binding]; metal-binding site 393595006941 active site 393595006942 I-site; other site 393595006943 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 393595006944 tetramer interfaces [polypeptide binding]; other site 393595006945 binuclear metal-binding site [ion binding]; other site 393595006946 Thiamine monophosphate kinase [Coenzyme metabolism]; Region: ThiL; COG0611 393595006947 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 393595006948 ATP binding site [chemical binding]; other site 393595006949 dimerization interface [polypeptide binding]; other site 393595006950 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 393595006951 putative RNA binding site [nucleotide binding]; other site 393595006952 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 393595006953 homopentamer interface [polypeptide binding]; other site 393595006954 active site 393595006955 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 393595006956 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 393595006957 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 393595006958 dimerization interface [polypeptide binding]; other site 393595006959 active site 393595006960 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 393595006961 Lumazine binding domain; Region: Lum_binding; pfam00677 393595006962 Lumazine binding domain; Region: Lum_binding; pfam00677 393595006963 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 393595006964 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 393595006965 catalytic motif [active] 393595006966 Zn binding site [ion binding]; other site 393595006967 RibD C-terminal domain; Region: RibD_C; cl17279 393595006968 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 393595006969 ATP cone domain; Region: ATP-cone; pfam03477 393595006970 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 393595006971 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 393595006972 dimer interface [polypeptide binding]; other site 393595006973 active site 393595006974 glycine-pyridoxal phosphate binding site [chemical binding]; other site 393595006975 folate binding site [chemical binding]; other site 393595006976 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 393595006977 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 393595006978 Walker A/P-loop; other site 393595006979 ATP binding site [chemical binding]; other site 393595006980 Q-loop/lid; other site 393595006981 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 393595006982 ABC transporter signature motif; other site 393595006983 Walker B; other site 393595006984 D-loop; other site 393595006985 ABC transporter; Region: ABC_tran_2; pfam12848 393595006986 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 393595006987 PilZ domain; Region: PilZ; pfam07238 393595006988 RNA polymerase sigma factor SigM; Reviewed; Region: PRK09643 393595006989 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 393595006990 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 393595006991 DNA binding residues [nucleotide binding] 393595006992 Putative zinc-finger; Region: zf-HC2; pfam13490 393595006993 Methyltransferase domain; Region: Methyltransf_31; pfam13847 393595006994 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 393595006995 S-adenosylmethionine binding site [chemical binding]; other site 393595006996 Uncharacterized conserved protein [Function unknown]; Region: COG0398 393595006997 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 393595006998 mercuric reductase; Validated; Region: PRK06370 393595006999 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 393595007000 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 393595007001 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 393595007002 Protein of unknown function, DUF547; Region: DUF547; pfam04784 393595007003 DNA repair protein RadA; Provisional; Region: PRK11823 393595007004 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 393595007005 Walker A motif/ATP binding site; other site 393595007006 ATP binding site [chemical binding]; other site 393595007007 Walker B motif; other site 393595007008 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 393595007009 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 393595007010 alanine racemase; Reviewed; Region: alr; PRK00053 393595007011 active site 393595007012 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 393595007013 substrate binding site [chemical binding]; other site 393595007014 catalytic residues [active] 393595007015 dimer interface [polypeptide binding]; other site 393595007016 replicative DNA helicase; Region: DnaB; TIGR00665 393595007017 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 393595007018 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 393595007019 Walker A motif; other site 393595007020 ATP binding site [chemical binding]; other site 393595007021 Walker B motif; other site 393595007022 DNA binding loops [nucleotide binding] 393595007023 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 393595007024 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 393595007025 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 393595007026 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 393595007027 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 393595007028 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 393595007029 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 393595007030 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 393595007031 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 393595007032 ribonuclease R; Region: RNase_R; TIGR02063 393595007033 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 393595007034 RNB domain; Region: RNB; pfam00773 393595007035 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 393595007036 RNA binding site [nucleotide binding]; other site 393595007037 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 393595007038 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 393595007039 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 393595007040 GDP-binding site [chemical binding]; other site 393595007041 ACT binding site; other site 393595007042 IMP binding site; other site 393595007043 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 393595007044 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 393595007045 dimer interface [polypeptide binding]; other site 393595007046 motif 1; other site 393595007047 active site 393595007048 motif 2; other site 393595007049 motif 3; other site 393595007050 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 393595007051 FtsH protease regulator HflC; Provisional; Region: PRK11029 393595007052 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 393595007053 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 393595007054 HflK protein; Region: hflK; TIGR01933 393595007055 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 393595007056 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 393595007057 HflX GTPase family; Region: HflX; cd01878 393595007058 G1 box; other site 393595007059 GTP/Mg2+ binding site [chemical binding]; other site 393595007060 Switch I region; other site 393595007061 G2 box; other site 393595007062 G3 box; other site 393595007063 Switch II region; other site 393595007064 G4 box; other site 393595007065 G5 box; other site 393595007066 bacterial Hfq-like; Region: Hfq; cd01716 393595007067 hexamer interface [polypeptide binding]; other site 393595007068 Sm1 motif; other site 393595007069 RNA binding site [nucleotide binding]; other site 393595007070 Sm2 motif; other site 393595007071 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 393595007072 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 393595007073 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 393595007074 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 393595007075 ATP binding site [chemical binding]; other site 393595007076 Mg2+ binding site [ion binding]; other site 393595007077 G-X-G motif; other site 393595007078 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 393595007079 ATP binding site [chemical binding]; other site 393595007080 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 393595007081 AMIN domain; Region: AMIN; pfam11741 393595007082 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 393595007083 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 393595007084 active site 393595007085 metal binding site [ion binding]; metal-binding site 393595007086 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 393595007087 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 393595007088 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 393595007089 putative carbohydrate kinase; Provisional; Region: PRK10565 393595007090 Uncharacterized conserved protein [Function unknown]; Region: COG0062 393595007091 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 393595007092 putative substrate binding site [chemical binding]; other site 393595007093 putative ATP binding site [chemical binding]; other site 393595007094 epoxyqueuosine reductase; Region: TIGR00276 393595007095 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 393595007096 4Fe-4S binding domain; Region: Fer4; pfam00037 393595007097 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 393595007098 catalytic site [active] 393595007099 putative active site [active] 393595007100 putative substrate binding site [chemical binding]; other site 393595007101 dimer interface [polypeptide binding]; other site 393595007102 GTPase RsgA; Reviewed; Region: PRK12288 393595007103 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 393595007104 RNA binding site [nucleotide binding]; other site 393595007105 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 393595007106 GTPase/Zn-binding domain interface [polypeptide binding]; other site 393595007107 GTP/Mg2+ binding site [chemical binding]; other site 393595007108 G4 box; other site 393595007109 G5 box; other site 393595007110 G1 box; other site 393595007111 Switch I region; other site 393595007112 G2 box; other site 393595007113 G3 box; other site 393595007114 Switch II region; other site 393595007115 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 393595007116 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 393595007117 active site residue [active] 393595007118 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 393595007119 active site residue [active] 393595007120 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 393595007121 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 393595007122 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 393595007123 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 393595007124 putative active site [active] 393595007125 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 393595007126 AAA domain; Region: AAA_26; pfam13500 393595007127 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 393595007128 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 393595007129 S-adenosylmethionine binding site [chemical binding]; other site 393595007130 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 393595007131 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 393595007132 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 393595007133 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 393595007134 substrate-cofactor binding pocket; other site 393595007135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595007136 catalytic residue [active] 393595007137 biotin synthase; Provisional; Region: PRK15108 393595007138 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 393595007139 FeS/SAM binding site; other site 393595007140 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 393595007141 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 393595007142 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 393595007143 active site 393595007144 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 393595007145 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 393595007146 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595007147 active site 393595007148 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_a; cd00913 393595007149 aromatic arch; other site 393595007150 DCoH dimer interaction site [polypeptide binding]; other site 393595007151 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 393595007152 DCoH tetramer interaction site [polypeptide binding]; other site 393595007153 substrate binding site [chemical binding]; other site 393595007154 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 393595007155 CoenzymeA binding site [chemical binding]; other site 393595007156 subunit interaction site [polypeptide binding]; other site 393595007157 PHB binding site; other site 393595007158 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 393595007159 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 393595007160 substrate binding site [chemical binding]; other site 393595007161 active site 393595007162 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 393595007163 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 393595007164 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 393595007165 active site 393595007166 dimer interface [polypeptide binding]; other site 393595007167 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 393595007168 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 393595007169 active site 393595007170 FMN binding site [chemical binding]; other site 393595007171 substrate binding site [chemical binding]; other site 393595007172 3Fe-4S cluster binding site [ion binding]; other site 393595007173 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 393595007174 domain interface; other site 393595007175 AAA domain; Region: AAA_22; pfam13401 393595007176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 393595007177 Sporulation related domain; Region: SPOR; pfam05036 393595007178 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 393595007179 active site 393595007180 dimer interface [polypeptide binding]; other site 393595007181 metal binding site [ion binding]; metal-binding site 393595007182 shikimate kinase; Reviewed; Region: aroK; PRK00131 393595007183 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 393595007184 ADP binding site [chemical binding]; other site 393595007185 magnesium binding site [ion binding]; other site 393595007186 putative shikimate binding site; other site 393595007187 AMIN domain; Region: AMIN; pfam11741 393595007188 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 393595007189 Secretin and TonB N terminus short domain; Region: STN; smart00965 393595007190 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 393595007191 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 393595007192 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 393595007193 Pilus assembly protein, PilP; Region: PilP; pfam04351 393595007194 Pilus assembly protein, PilO; Region: PilO; pfam04350 393595007195 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 393595007196 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 393595007197 Competence protein A; Region: Competence_A; pfam11104 393595007198 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 393595007199 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 393595007200 Transglycosylase; Region: Transgly; pfam00912 393595007201 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 393595007202 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 393595007203 Malic enzyme, N-terminal domain; Region: malic; pfam00390 393595007204 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 393595007205 putative NAD(P) binding site [chemical binding]; other site 393595007206 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 393595007207 primosome assembly protein PriA; Validated; Region: PRK05580 393595007208 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 393595007209 ATP binding site [chemical binding]; other site 393595007210 putative Mg++ binding site [ion binding]; other site 393595007211 helicase superfamily c-terminal domain; Region: HELICc; smart00490 393595007212 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 393595007213 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 393595007214 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 393595007215 active site 393595007216 HIGH motif; other site 393595007217 KMSK motif region; other site 393595007218 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 393595007219 tRNA binding surface [nucleotide binding]; other site 393595007220 anticodon binding site; other site 393595007221 Sporulation related domain; Region: SPOR; pfam05036 393595007222 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 393595007223 active site 393595007224 HslU subunit interaction site [polypeptide binding]; other site 393595007225 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 393595007226 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 393595007227 Walker A motif; other site 393595007228 ATP binding site [chemical binding]; other site 393595007229 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 393595007230 Walker B motif; other site 393595007231 arginine finger; other site 393595007232 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 393595007233 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 393595007234 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 393595007235 S-adenosylmethionine binding site [chemical binding]; other site 393595007236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 393595007237 SCP-2 sterol transfer family; Region: SCP2; pfam02036 393595007238 ABC1 family; Region: ABC1; cl17513 393595007239 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 393595007240 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 393595007241 metal binding site [ion binding]; metal-binding site 393595007242 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 393595007243 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 393595007244 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 393595007245 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 393595007246 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 393595007247 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 393595007248 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 393595007249 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 393595007250 putative active site [active] 393595007251 dimerization interface [polypeptide binding]; other site 393595007252 putative tRNAtyr binding site [nucleotide binding]; other site 393595007253 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 393595007254 TAP-like protein; Region: Abhydrolase_4; pfam08386 393595007255 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 393595007256 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595007257 active site 393595007258 phosphorylation site [posttranslational modification] 393595007259 intermolecular recognition site; other site 393595007260 dimerization interface [polypeptide binding]; other site 393595007261 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 393595007262 Walker A motif; other site 393595007263 ATP binding site [chemical binding]; other site 393595007264 Walker B motif; other site 393595007265 arginine finger; other site 393595007266 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 393595007267 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 393595007268 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 393595007269 putative active site [active] 393595007270 heme pocket [chemical binding]; other site 393595007271 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 393595007272 dimer interface [polypeptide binding]; other site 393595007273 phosphorylation site [posttranslational modification] 393595007274 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 393595007275 ATP binding site [chemical binding]; other site 393595007276 Mg2+ binding site [ion binding]; other site 393595007277 G-X-G motif; other site 393595007278 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 393595007279 glutamine synthetase; Provisional; Region: glnA; PRK09469 393595007280 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 393595007281 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 393595007282 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 393595007283 CPxP motif; other site 393595007284 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 393595007285 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 393595007286 Ligand Binding Site [chemical binding]; other site 393595007287 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 393595007288 Sulfatase; Region: Sulfatase; pfam00884 393595007289 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 393595007290 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 393595007291 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 393595007292 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 393595007293 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 393595007294 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 393595007295 G1 box; other site 393595007296 putative GEF interaction site [polypeptide binding]; other site 393595007297 GTP/Mg2+ binding site [chemical binding]; other site 393595007298 Switch I region; other site 393595007299 G2 box; other site 393595007300 G3 box; other site 393595007301 Switch II region; other site 393595007302 G4 box; other site 393595007303 G5 box; other site 393595007304 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 393595007305 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 393595007306 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 393595007307 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 393595007308 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 393595007309 SecA binding site; other site 393595007310 Preprotein binding site; other site 393595007311 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 393595007312 GSH binding site [chemical binding]; other site 393595007313 catalytic residues [active] 393595007314 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 393595007315 active site residue [active] 393595007316 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 393595007317 Peptidase family M23; Region: Peptidase_M23; pfam01551 393595007318 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 393595007319 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 393595007320 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 393595007321 protein binding site [polypeptide binding]; other site 393595007322 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 393595007323 Catalytic dyad [active] 393595007324 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 393595007325 NodB motif; other site 393595007326 putative active site [active] 393595007327 putative catalytic site [active] 393595007328 Zn binding site [ion binding]; other site 393595007329 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 393595007330 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 393595007331 substrate binding site [chemical binding]; other site 393595007332 glutamase interaction surface [polypeptide binding]; other site 393595007333 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 393595007334 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 393595007335 catalytic residues [active] 393595007336 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 393595007337 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 393595007338 putative active site [active] 393595007339 oxyanion strand; other site 393595007340 catalytic triad [active] 393595007341 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 393595007342 putative active site pocket [active] 393595007343 4-fold oligomerization interface [polypeptide binding]; other site 393595007344 metal binding residues [ion binding]; metal-binding site 393595007345 3-fold/trimer interface [polypeptide binding]; other site 393595007346 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 393595007347 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 393595007348 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 393595007349 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595007350 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 393595007351 ATP binding site [chemical binding]; other site 393595007352 Mg2+ binding site [ion binding]; other site 393595007353 G-X-G motif; other site 393595007354 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 393595007355 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 393595007356 adenine DNA glycosylase; Provisional; Region: PRK10880 393595007357 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 393595007358 minor groove reading motif; other site 393595007359 helix-hairpin-helix signature motif; other site 393595007360 substrate binding pocket [chemical binding]; other site 393595007361 active site 393595007362 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 393595007363 DNA binding and oxoG recognition site [nucleotide binding] 393595007364 oxidative damage protection protein; Provisional; Region: PRK05408 393595007365 Integrase core domain; Region: rve; pfam00665 393595007366 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 393595007367 Cytochrome P450; Region: p450; cl12078 393595007368 Peptidase family M48; Region: Peptidase_M48; pfam01435 393595007369 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 393595007370 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 393595007371 putative ribose interaction site [chemical binding]; other site 393595007372 putative ADP binding site [chemical binding]; other site 393595007373 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 393595007374 active site 393595007375 nucleotide binding site [chemical binding]; other site 393595007376 HIGH motif; other site 393595007377 KMSKS motif; other site 393595007378 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 393595007379 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 393595007380 putative acyl-acceptor binding pocket; other site 393595007381 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 393595007382 active site 393595007383 ATP binding site [chemical binding]; other site 393595007384 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 393595007385 active site 393595007386 ATP binding site [chemical binding]; other site 393595007387 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 393595007388 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 393595007389 active site 393595007390 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 393595007391 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 393595007392 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 393595007393 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 393595007394 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 393595007395 putative active site [active] 393595007396 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 393595007397 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 393595007398 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 393595007399 putative active site [active] 393595007400 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 393595007401 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 393595007402 homodimer interface [polypeptide binding]; other site 393595007403 substrate-cofactor binding pocket; other site 393595007404 catalytic residue [active] 393595007405 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 393595007406 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 393595007407 metal binding triad; other site 393595007408 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 393595007409 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 393595007410 metal binding triad; other site 393595007411 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 393595007412 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 393595007413 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 393595007414 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 393595007415 Walker A motif; other site 393595007416 ATP binding site [chemical binding]; other site 393595007417 Walker B motif; other site 393595007418 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 393595007419 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 393595007420 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 393595007421 N-acetylglutamate synthase; Validated; Region: PRK05279 393595007422 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 393595007423 putative feedback inhibition sensing region; other site 393595007424 putative nucleotide binding site [chemical binding]; other site 393595007425 putative substrate binding site [chemical binding]; other site 393595007426 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 393595007427 Coenzyme A binding pocket [chemical binding]; other site 393595007428 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 393595007429 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 393595007430 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 393595007431 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 393595007432 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 393595007433 Predicted membrane protein [Function unknown]; Region: COG3686 393595007434 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 393595007435 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 393595007436 catalytic loop [active] 393595007437 iron binding site [ion binding]; other site 393595007438 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 393595007439 FAD binding pocket [chemical binding]; other site 393595007440 FAD binding motif [chemical binding]; other site 393595007441 phosphate binding motif [ion binding]; other site 393595007442 beta-alpha-beta structure motif; other site 393595007443 NAD binding pocket [chemical binding]; other site 393595007444 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 393595007445 Paraquat-inducible protein A; Region: PqiA; pfam04403 393595007446 Paraquat-inducible protein A; Region: PqiA; pfam04403 393595007447 Uncharacterized protein family (UPF0233); Region: UPF0233; cl11506 393595007448 paraquat-inducible protein B; Provisional; Region: PRK10807 393595007449 mce related protein; Region: MCE; pfam02470 393595007450 mce related protein; Region: MCE; pfam02470 393595007451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 393595007452 Protein of unknown function (DUF330); Region: DUF330; pfam03886 393595007453 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 393595007454 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 393595007455 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 393595007456 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 393595007457 active site 393595007458 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 393595007459 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 393595007460 domain interfaces; other site 393595007461 active site 393595007462 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 393595007463 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595007464 active site 393595007465 phosphorylation site [posttranslational modification] 393595007466 intermolecular recognition site; other site 393595007467 dimerization interface [polypeptide binding]; other site 393595007468 LytTr DNA-binding domain; Region: LytTR; smart00850 393595007469 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 393595007470 Histidine kinase; Region: His_kinase; pfam06580 393595007471 argininosuccinate lyase; Provisional; Region: PRK00855 393595007472 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 393595007473 active sites [active] 393595007474 tetramer interface [polypeptide binding]; other site 393595007475 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 393595007476 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 393595007477 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 393595007478 diaminopimelate decarboxylase; Region: lysA; TIGR01048 393595007479 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 393595007480 active site 393595007481 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 393595007482 substrate binding site [chemical binding]; other site 393595007483 catalytic residues [active] 393595007484 dimer interface [polypeptide binding]; other site 393595007485 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 393595007486 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 393595007487 Coenzyme A binding pocket [chemical binding]; other site 393595007488 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 393595007489 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 393595007490 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 393595007491 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 393595007492 Protein of unknown function, DUF484; Region: DUF484; cl17449 393595007493 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 393595007494 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 393595007495 active site 393595007496 Int/Topo IB signature motif; other site 393595007497 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 393595007498 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 393595007499 motif II; other site 393595007500 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 393595007501 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 393595007502 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 393595007503 Hemin uptake protein hemP; Region: hemP; pfam10636 393595007504 OsmC-like protein; Region: OsmC; cl00767 393595007505 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 393595007506 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 393595007507 folate binding site [chemical binding]; other site 393595007508 NADP+ binding site [chemical binding]; other site 393595007509 thymidylate synthase; Reviewed; Region: thyA; PRK01827 393595007510 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 393595007511 dimerization interface [polypeptide binding]; other site 393595007512 active site 393595007513 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 393595007514 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 393595007515 NRDE protein; Region: NRDE; cl01315 393595007516 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 393595007517 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 393595007518 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 393595007519 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 393595007520 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 393595007521 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 393595007522 putative active site [active] 393595007523 Ap4A binding site [chemical binding]; other site 393595007524 nudix motif; other site 393595007525 putative metal binding site [ion binding]; other site 393595007526 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 393595007527 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 393595007528 motif II; other site 393595007529 copper exporting ATPase; Provisional; Region: copA; PRK10671 393595007530 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 393595007531 metal-binding site [ion binding] 393595007532 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 393595007533 metal-binding site [ion binding] 393595007534 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 393595007535 Soluble P-type ATPase [General function prediction only]; Region: COG4087 393595007536 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 393595007537 S-adenosylmethionine binding site [chemical binding]; other site 393595007538 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 393595007539 Predicted metal-binding protein [General function prediction only]; Region: COG3019 393595007540 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 393595007541 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 393595007542 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 393595007543 Multicopper oxidase; Region: Cu-oxidase; pfam00394 393595007544 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 393595007545 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 393595007546 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 393595007547 active site clefts [active] 393595007548 zinc binding site [ion binding]; other site 393595007549 dimer interface [polypeptide binding]; other site 393595007550 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 393595007551 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 393595007552 FeS/SAM binding site; other site 393595007553 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 393595007554 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 393595007555 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 393595007556 glutamate racemase; Provisional; Region: PRK00865 393595007557 aspartate racemase; Region: asp_race; TIGR00035 393595007558 cobyric acid synthase; Provisional; Region: PRK00784 393595007559 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 393595007560 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 393595007561 catalytic triad [active] 393595007562 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 393595007563 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 393595007564 homodimer interface [polypeptide binding]; other site 393595007565 Walker A motif; other site 393595007566 ATP binding site [chemical binding]; other site 393595007567 hydroxycobalamin binding site [chemical binding]; other site 393595007568 Walker B motif; other site 393595007569 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 393595007570 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 393595007571 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 393595007572 catalytic triad [active] 393595007573 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 393595007574 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 393595007575 Walker A/P-loop; other site 393595007576 ATP binding site [chemical binding]; other site 393595007577 Q-loop/lid; other site 393595007578 ABC transporter signature motif; other site 393595007579 Walker B; other site 393595007580 D-loop; other site 393595007581 H-loop/switch region; other site 393595007582 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 393595007583 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 393595007584 dimer interface [polypeptide binding]; other site 393595007585 putative PBP binding regions; other site 393595007586 ABC-ATPase subunit interface; other site 393595007587 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 393595007588 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 393595007589 cobalamin binding residues [chemical binding]; other site 393595007590 putative BtuC binding residues; other site 393595007591 dimer interface [polypeptide binding]; other site 393595007592 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 393595007593 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 393595007594 N-terminal plug; other site 393595007595 ligand-binding site [chemical binding]; other site 393595007596 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 393595007597 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 393595007598 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 393595007599 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 393595007600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595007601 homodimer interface [polypeptide binding]; other site 393595007602 catalytic residue [active] 393595007603 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 393595007604 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 393595007605 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 393595007606 putative dimer interface [polypeptide binding]; other site 393595007607 active site pocket [active] 393595007608 putative cataytic base [active] 393595007609 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 393595007610 catalytic core [active] 393595007611 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 393595007612 homotrimer interface [polypeptide binding]; other site 393595007613 Walker A motif; other site 393595007614 GTP binding site [chemical binding]; other site 393595007615 Walker B motif; other site 393595007616 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 393595007617 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 393595007618 PhnA protein; Region: PhnA; pfam03831 393595007619 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 393595007620 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 393595007621 dimer interface [polypeptide binding]; other site 393595007622 putative functional site; other site 393595007623 putative MPT binding site; other site 393595007624 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 393595007625 MPT binding site; other site 393595007626 trimer interface [polypeptide binding]; other site 393595007627 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 393595007628 Cytochrome P450; Region: p450; cl12078 393595007629 mechanosensitive channel MscS; Provisional; Region: PRK10334 393595007630 Conserved TM helix; Region: TM_helix; pfam05552 393595007631 Mechanosensitive ion channel; Region: MS_channel; pfam00924 393595007632 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 393595007633 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 393595007634 Mechanosensitive ion channel; Region: MS_channel; pfam00924 393595007635 Predicted membrane protein [Function unknown]; Region: COG3671 393595007636 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 393595007637 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 393595007638 glycerate dehydrogenase; Provisional; Region: PRK06487 393595007639 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 393595007640 putative ligand binding site [chemical binding]; other site 393595007641 putative NAD binding site [chemical binding]; other site 393595007642 catalytic site [active] 393595007643 Protein of unknown function (DUF523); Region: DUF523; pfam04463 393595007644 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 393595007645 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 393595007646 classical (c) SDRs; Region: SDR_c; cd05233 393595007647 short chain dehydrogenase; Provisional; Region: PRK05650 393595007648 NAD(P) binding site [chemical binding]; other site 393595007649 active site 393595007650 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 393595007651 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 393595007652 [2Fe-2S] cluster binding site [ion binding]; other site 393595007653 arginine decarboxylase; Provisional; Region: PRK05354 393595007654 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 393595007655 dimer interface [polypeptide binding]; other site 393595007656 active site 393595007657 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 393595007658 catalytic residues [active] 393595007659 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 393595007660 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 393595007661 spermidine synthase; Provisional; Region: PRK00811 393595007662 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 393595007663 S-adenosylmethionine binding site [chemical binding]; other site 393595007664 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 393595007665 Transcriptional regulator [Transcription]; Region: LysR; COG0583 393595007666 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595007667 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 393595007668 substrate binding pocket [chemical binding]; other site 393595007669 dimerization interface [polypeptide binding]; other site 393595007670 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 393595007671 catalytic core [active] 393595007672 short chain dehydrogenase; Provisional; Region: PRK08251 393595007673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 393595007674 NAD(P) binding site [chemical binding]; other site 393595007675 active site 393595007676 mce related protein; Region: MCE; pfam02470 393595007677 mce related protein; Region: MCE; pfam02470 393595007678 Paraquat-inducible protein A; Region: PqiA; pfam04403 393595007679 Paraquat-inducible protein A; Region: PqiA; pfam04403 393595007680 helicase 45; Provisional; Region: PTZ00424 393595007681 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 393595007682 ATP binding site [chemical binding]; other site 393595007683 Mg++ binding site [ion binding]; other site 393595007684 motif III; other site 393595007685 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 393595007686 nucleotide binding region [chemical binding]; other site 393595007687 ATP-binding site [chemical binding]; other site 393595007688 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 393595007689 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 393595007690 PGAP1-like protein; Region: PGAP1; pfam07819 393595007691 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 393595007692 Putative exonuclease, RdgC; Region: RdgC; pfam04381 393595007693 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 393595007694 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 393595007695 active site 393595007696 catalytic tetrad [active] 393595007697 haloalkane dehalogenase; Provisional; Region: PRK00870 393595007698 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 393595007699 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 393595007700 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 393595007701 C-terminal domain interface [polypeptide binding]; other site 393595007702 GSH binding site (G-site) [chemical binding]; other site 393595007703 dimer interface [polypeptide binding]; other site 393595007704 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 393595007705 N-terminal domain interface [polypeptide binding]; other site 393595007706 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595007707 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595007708 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 393595007709 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 393595007710 dimer interface [polypeptide binding]; other site 393595007711 active site 393595007712 metal binding site [ion binding]; metal-binding site 393595007713 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 393595007714 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 393595007715 potential catalytic triad [active] 393595007716 conserved cys residue [active] 393595007717 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 393595007718 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 393595007719 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 393595007720 NMT1/THI5 like; Region: NMT1; pfam09084 393595007721 Uncharacterized conserved protein [Function unknown]; Region: COG0397 393595007722 hypothetical protein; Validated; Region: PRK00029 393595007723 putative S-transferase; Provisional; Region: PRK11752 393595007724 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 393595007725 C-terminal domain interface [polypeptide binding]; other site 393595007726 GSH binding site (G-site) [chemical binding]; other site 393595007727 dimer interface [polypeptide binding]; other site 393595007728 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 393595007729 dimer interface [polypeptide binding]; other site 393595007730 N-terminal domain interface [polypeptide binding]; other site 393595007731 active site 393595007732 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 393595007733 Transcriptional regulator [Transcription]; Region: LysR; COG0583 393595007734 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 393595007735 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 393595007736 dimerization interface [polypeptide binding]; other site 393595007737 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 393595007738 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 393595007739 active site 393595007740 metal binding site [ion binding]; metal-binding site 393595007741 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 393595007742 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 393595007743 catalytic residue [active] 393595007744 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 393595007745 catalytic residues [active] 393595007746 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 393595007747 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 393595007748 peroxiredoxin; Region: AhpC; TIGR03137 393595007749 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 393595007750 dimer interface [polypeptide binding]; other site 393595007751 decamer (pentamer of dimers) interface [polypeptide binding]; other site 393595007752 catalytic triad [active] 393595007753 peroxidatic and resolving cysteines [active] 393595007754 PAS domain S-box; Region: sensory_box; TIGR00229 393595007755 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 393595007756 putative active site [active] 393595007757 heme pocket [chemical binding]; other site 393595007758 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 393595007759 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 393595007760 putative active site [active] 393595007761 heme pocket [chemical binding]; other site 393595007762 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 393595007763 putative active site [active] 393595007764 heme pocket [chemical binding]; other site 393595007765 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 393595007766 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 393595007767 metal binding site [ion binding]; metal-binding site 393595007768 active site 393595007769 I-site; other site 393595007770 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 393595007771 Transglycosylase; Region: Transgly; cl17702 393595007772 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 393595007773 META domain; Region: META; pfam03724 393595007774 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 393595007775 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 393595007776 catalytic triad [active] 393595007777 2-isopropylmalate synthase; Validated; Region: PRK03739 393595007778 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 393595007779 active site 393595007780 catalytic residues [active] 393595007781 metal binding site [ion binding]; metal-binding site 393595007782 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 393595007783 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 393595007784 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 393595007785 putative DNA binding site [nucleotide binding]; other site 393595007786 putative Zn2+ binding site [ion binding]; other site 393595007787 AsnC family; Region: AsnC_trans_reg; pfam01037 393595007788 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 393595007789 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 393595007790 enoyl-CoA hydratase; Provisional; Region: PRK06688 393595007791 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 393595007792 substrate binding site [chemical binding]; other site 393595007793 oxyanion hole (OAH) forming residues; other site 393595007794 trimer interface [polypeptide binding]; other site 393595007795 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 393595007796 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 393595007797 phosphoserine phosphatase SerB; Region: serB; TIGR00338 393595007798 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 393595007799 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 393595007800 motif II; other site 393595007801 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 393595007802 putative active site [active] 393595007803 heme pocket [chemical binding]; other site 393595007804 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 393595007805 metal binding site [ion binding]; metal-binding site 393595007806 active site 393595007807 I-site; other site 393595007808 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 393595007809 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 393595007810 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 393595007811 FeS/SAM binding site; other site 393595007812 elongation factor P; Validated; Region: PRK00529 393595007813 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 393595007814 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 393595007815 RNA binding site [nucleotide binding]; other site 393595007816 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 393595007817 RNA binding site [nucleotide binding]; other site 393595007818 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 393595007819 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 393595007820 motif 1; other site 393595007821 dimer interface [polypeptide binding]; other site 393595007822 active site 393595007823 motif 2; other site 393595007824 motif 3; other site 393595007825 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 393595007826 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 393595007827 TAP-like protein; Region: Abhydrolase_4; pfam08386 393595007828 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595007829 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595007830 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 393595007831 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 393595007832 dimer interface [polypeptide binding]; other site 393595007833 active site 393595007834 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 393595007835 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595007836 active site 393595007837 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 393595007838 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 393595007839 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 393595007840 metallophosphoesterase, PPA1498 family; Region: P_acnes_RR; cl17623 393595007841 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 393595007842 Protein of unknown function (DUF502); Region: DUF502; cl01107 393595007843 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 393595007844 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 393595007845 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 393595007846 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 393595007847 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 393595007848 putative metal binding site [ion binding]; other site 393595007849 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 393595007850 dimer interface [polypeptide binding]; other site 393595007851 active site 393595007852 aspartate-rich active site metal binding site; other site 393595007853 allosteric magnesium binding site [ion binding]; other site 393595007854 Schiff base residues; other site 393595007855 polyphosphate kinase; Provisional; Region: PRK05443 393595007856 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 393595007857 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 393595007858 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 393595007859 putative domain interface [polypeptide binding]; other site 393595007860 putative active site [active] 393595007861 catalytic site [active] 393595007862 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 393595007863 putative domain interface [polypeptide binding]; other site 393595007864 putative active site [active] 393595007865 catalytic site [active] 393595007866 exopolyphosphatase; Provisional; Region: PRK10854 393595007867 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 393595007868 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 393595007869 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 393595007870 catalytic residues [active] 393595007871 transcription termination factor Rho; Provisional; Region: rho; PRK09376 393595007872 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 393595007873 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 393595007874 RNA binding site [nucleotide binding]; other site 393595007875 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 393595007876 multimer interface [polypeptide binding]; other site 393595007877 Walker A motif; other site 393595007878 ATP binding site [chemical binding]; other site 393595007879 Walker B motif; other site 393595007880 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 393595007881 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 393595007882 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 393595007883 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 393595007884 FAD binding domain; Region: FAD_binding_4; pfam01565 393595007885 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 393595007886 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 393595007887 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 393595007888 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 393595007889 catalytic residue [active] 393595007890 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 393595007891 Transposase; Region: DDE_Tnp_ISL3; pfam01610 393595007892 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 393595007893 putative metal binding site [ion binding]; other site 393595007894 putative homodimer interface [polypeptide binding]; other site 393595007895 putative homotetramer interface [polypeptide binding]; other site 393595007896 putative homodimer-homodimer interface [polypeptide binding]; other site 393595007897 putative allosteric switch controlling residues; other site 393595007898 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 393595007899 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 393595007900 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 393595007901 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 393595007902 HlyD family secretion protein; Region: HlyD_3; pfam13437 393595007903 Outer membrane efflux protein; Region: OEP; pfam02321 393595007904 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 393595007905 Transposase; Region: DDE_Tnp_ISL3; pfam01610 393595007906 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 393595007907 putative metal binding site [ion binding]; other site 393595007908 putative homodimer interface [polypeptide binding]; other site 393595007909 putative homotetramer interface [polypeptide binding]; other site 393595007910 putative homodimer-homodimer interface [polypeptide binding]; other site 393595007911 putative allosteric switch controlling residues; other site 393595007912 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 393595007913 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 393595007914 Predicted membrane protein [Function unknown]; Region: COG1971 393595007915 Domain of unknown function DUF; Region: DUF204; pfam02659 393595007916 Domain of unknown function DUF; Region: DUF204; pfam02659 393595007917 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 393595007918 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 393595007919 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 393595007920 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 393595007921 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 393595007922 N-terminal plug; other site 393595007923 ligand-binding site [chemical binding]; other site 393595007924 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 393595007925 Amidase; Region: Amidase; cl11426 393595007926 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 393595007927 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 393595007928 putative NAD(P) binding site [chemical binding]; other site 393595007929 dimer interface [polypeptide binding]; other site 393595007930 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 393595007931 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 393595007932 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 393595007933 N-terminal plug; other site 393595007934 ligand-binding site [chemical binding]; other site 393595007935 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 393595007936 ligand-binding site [chemical binding]; other site 393595007937 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 393595007938 S1 domain; Region: S1_2; pfam13509 393595007939 S1 domain; Region: S1_2; pfam13509 393595007940 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 393595007941 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 393595007942 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 393595007943 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 393595007944 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 393595007945 putative acyl-acceptor binding pocket; other site 393595007946 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 393595007947 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 393595007948 CAP-like domain; other site 393595007949 active site 393595007950 primary dimer interface [polypeptide binding]; other site 393595007951 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 393595007952 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 393595007953 anchoring element; other site 393595007954 dimer interface [polypeptide binding]; other site 393595007955 ATP binding site [chemical binding]; other site 393595007956 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 393595007957 active site 393595007958 putative metal-binding site [ion binding]; other site 393595007959 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 393595007960 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 393595007961 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 393595007962 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 393595007963 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 393595007964 active site 393595007965 metal binding site [ion binding]; metal-binding site 393595007966 hexamer interface [polypeptide binding]; other site 393595007967 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 393595007968 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 393595007969 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 393595007970 dimer interface [polypeptide binding]; other site 393595007971 ADP-ribose binding site [chemical binding]; other site 393595007972 active site 393595007973 nudix motif; other site 393595007974 metal binding site [ion binding]; metal-binding site 393595007975 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 393595007976 ThiC-associated domain; Region: ThiC-associated; pfam13667 393595007977 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 393595007978 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 393595007979 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 393595007980 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 393595007981 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 393595007982 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 393595007983 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 393595007984 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 393595007985 active site 393595007986 catalytic tetrad [active] 393595007987 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 393595007988 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 393595007989 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 393595007990 active site 393595007991 nucleophile elbow; other site 393595007992 allophanate hydrolase; Provisional; Region: PRK08186 393595007993 Amidase; Region: Amidase; pfam01425 393595007994 Transcriptional regulators [Transcription]; Region: GntR; COG1802 393595007995 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 393595007996 DNA-binding site [nucleotide binding]; DNA binding site 393595007997 FCD domain; Region: FCD; pfam07729 393595007998 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 393595007999 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 393595008000 putative ligand binding site [chemical binding]; other site 393595008001 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 393595008002 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 393595008003 TM-ABC transporter signature motif; other site 393595008004 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 393595008005 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 393595008006 TM-ABC transporter signature motif; other site 393595008007 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 393595008008 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 393595008009 Walker A/P-loop; other site 393595008010 ATP binding site [chemical binding]; other site 393595008011 Q-loop/lid; other site 393595008012 ABC transporter signature motif; other site 393595008013 Walker B; other site 393595008014 D-loop; other site 393595008015 H-loop/switch region; other site 393595008016 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 393595008017 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 393595008018 Walker A/P-loop; other site 393595008019 ATP binding site [chemical binding]; other site 393595008020 Q-loop/lid; other site 393595008021 ABC transporter signature motif; other site 393595008022 Walker B; other site 393595008023 D-loop; other site 393595008024 H-loop/switch region; other site 393595008025 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 393595008026 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 393595008027 Sodium Bile acid symporter family; Region: SBF; pfam01758 393595008028 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 393595008029 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 393595008030 dimer interface [polypeptide binding]; other site 393595008031 phosphorylation site [posttranslational modification] 393595008032 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 393595008033 ATP binding site [chemical binding]; other site 393595008034 Mg2+ binding site [ion binding]; other site 393595008035 G-X-G motif; other site 393595008036 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 393595008037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595008038 active site 393595008039 phosphorylation site [posttranslational modification] 393595008040 intermolecular recognition site; other site 393595008041 dimerization interface [polypeptide binding]; other site 393595008042 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 393595008043 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595008044 active site 393595008045 phosphorylation site [posttranslational modification] 393595008046 intermolecular recognition site; other site 393595008047 dimerization interface [polypeptide binding]; other site 393595008048 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 393595008049 DNA binding residues [nucleotide binding] 393595008050 dimerization interface [polypeptide binding]; other site 393595008051 Response regulator receiver domain; Region: Response_reg; pfam00072 393595008052 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595008053 active site 393595008054 phosphorylation site [posttranslational modification] 393595008055 intermolecular recognition site; other site 393595008056 dimerization interface [polypeptide binding]; other site 393595008057 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 393595008058 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 393595008059 putative active site [active] 393595008060 heme pocket [chemical binding]; other site 393595008061 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 393595008062 ATP binding site [chemical binding]; other site 393595008063 Mg2+ binding site [ion binding]; other site 393595008064 G-X-G motif; other site 393595008065 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 393595008066 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 393595008067 HlyD family secretion protein; Region: HlyD_3; pfam13437 393595008068 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595008069 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595008070 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 393595008071 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 393595008072 GAF domain; Region: GAF; pfam01590 393595008073 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 393595008074 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 393595008075 putative RNA binding site [nucleotide binding]; other site 393595008076 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 393595008077 S-adenosylmethionine binding site [chemical binding]; other site 393595008078 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 393595008079 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 393595008080 Nitrogen regulatory protein P-II; Region: P-II; smart00938 393595008081 Membrane fusogenic activity; Region: BMFP; pfam04380 393595008082 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 393595008083 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 393595008084 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 393595008085 Walker A motif; other site 393595008086 ATP binding site [chemical binding]; other site 393595008087 Walker B motif; other site 393595008088 arginine finger; other site 393595008089 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 393595008090 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 393595008091 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595008092 active site 393595008093 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 393595008094 classical (c) SDRs; Region: SDR_c; cd05233 393595008095 NAD(P) binding site [chemical binding]; other site 393595008096 active site 393595008097 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 393595008098 nudix motif; other site 393595008099 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595008100 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 393595008101 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595008102 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 393595008103 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 393595008104 RNA binding surface [nucleotide binding]; other site 393595008105 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 393595008106 active site 393595008107 uracil binding [chemical binding]; other site 393595008108 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 393595008109 Part of AAA domain; Region: AAA_19; pfam13245 393595008110 Family description; Region: UvrD_C_2; pfam13538 393595008111 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 393595008112 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 393595008113 CHASE2 domain; Region: CHASE2; pfam05226 393595008114 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 393595008115 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 393595008116 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 393595008117 dimer interface [polypeptide binding]; other site 393595008118 phosphorylation site [posttranslational modification] 393595008119 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 393595008120 ATP binding site [chemical binding]; other site 393595008121 Mg2+ binding site [ion binding]; other site 393595008122 G-X-G motif; other site 393595008123 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 393595008124 FecR protein; Region: FecR; pfam04773 393595008125 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 393595008126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 393595008127 active site 393595008128 phosphorylation site [posttranslational modification] 393595008129 intermolecular recognition site; other site 393595008130 dimerization interface [polypeptide binding]; other site 393595008131 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 393595008132 DNA binding site [nucleotide binding] 393595008133 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 393595008134 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 393595008135 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 393595008136 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 393595008137 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 393595008138 Fatty acid desaturase; Region: FA_desaturase; pfam00487 393595008139 putative di-iron ligands [ion binding]; other site 393595008140 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 393595008141 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 393595008142 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 393595008143 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 393595008144 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 393595008145 PGAP1-like protein; Region: PGAP1; pfam07819 393595008146 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 393595008147 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 393595008148 homodimer interface [polypeptide binding]; other site 393595008149 substrate-cofactor binding pocket; other site 393595008150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595008151 catalytic residue [active] 393595008152 enoyl-CoA hydratase; Provisional; Region: PRK08260 393595008153 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 393595008154 substrate binding site [chemical binding]; other site 393595008155 oxyanion hole (OAH) forming residues; other site 393595008156 trimer interface [polypeptide binding]; other site 393595008157 FOG: CBS domain [General function prediction only]; Region: COG0517 393595008158 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_16; cd04629 393595008159 AAA domain; Region: AAA_22; pfam13401 393595008160 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 393595008161 Mechanosensitive ion channel; Region: MS_channel; pfam00924 393595008162 NnrS protein; Region: NnrS; pfam05940 393595008163 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 393595008164 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 393595008165 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 393595008166 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 393595008167 S-adenosylmethionine binding site [chemical binding]; other site 393595008168 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 393595008169 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 393595008170 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 393595008171 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 393595008172 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 393595008173 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 393595008174 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 393595008175 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 393595008176 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 393595008177 P loop; other site 393595008178 GTP binding site [chemical binding]; other site 393595008179 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 393595008180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 393595008181 Walker A/P-loop; other site 393595008182 ATP binding site [chemical binding]; other site 393595008183 Q-loop/lid; other site 393595008184 ABC transporter signature motif; other site 393595008185 Walker B; other site 393595008186 D-loop; other site 393595008187 H-loop/switch region; other site 393595008188 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 393595008189 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 393595008190 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 393595008191 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 393595008192 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 393595008193 DNA binding residues [nucleotide binding] 393595008194 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 393595008195 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 393595008196 thiS-thiF/thiG interaction site; other site 393595008197 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 393595008198 ThiS interaction site; other site 393595008199 putative active site [active] 393595008200 tetramer interface [polypeptide binding]; other site 393595008201 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 393595008202 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 393595008203 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 393595008204 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 393595008205 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 393595008206 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 393595008207 active site 393595008208 dimerization interface [polypeptide binding]; other site 393595008209 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 393595008210 HemN family oxidoreductase; Provisional; Region: PRK05660 393595008211 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 393595008212 FeS/SAM binding site; other site 393595008213 HemN C-terminal domain; Region: HemN_C; pfam06969 393595008214 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595008215 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595008216 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 393595008217 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 393595008218 DNA binding site [nucleotide binding] 393595008219 catalytic residue [active] 393595008220 H2TH interface [polypeptide binding]; other site 393595008221 putative catalytic residues [active] 393595008222 turnover-facilitating residue; other site 393595008223 intercalation triad [nucleotide binding]; other site 393595008224 8OG recognition residue [nucleotide binding]; other site 393595008225 putative reading head residues; other site 393595008226 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 393595008227 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 393595008228 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 393595008229 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 393595008230 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 393595008231 Fatty acid desaturase; Region: FA_desaturase; pfam00487 393595008232 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 393595008233 Di-iron ligands [ion binding]; other site 393595008234 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 393595008235 Transposase; Region: DDE_Tnp_ISL3; pfam01610 393595008236 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 393595008237 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 393595008238 Integrase core domain; Region: rve_3; pfam13683 393595008239 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 393595008240 tetramer interface [polypeptide binding]; other site 393595008241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595008242 catalytic residue [active] 393595008243 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 393595008244 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 393595008245 tetramer interface [polypeptide binding]; other site 393595008246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595008247 catalytic residue [active] 393595008248 glycine cleavage system protein H; Provisional; Region: PRK13380 393595008249 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 393595008250 lipoyl attachment site [posttranslational modification]; other site 393595008251 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 393595008252 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 393595008253 Bacterial Ig-like domain; Region: Big_5; pfam13205 393595008254 Bacterial Ig-like domain; Region: Big_5; pfam13205 393595008255 Bacterial Ig-like domain; Region: Big_5; pfam13205 393595008256 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 393595008257 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 393595008258 dimer interface [polypeptide binding]; other site 393595008259 conserved gate region; other site 393595008260 putative PBP binding loops; other site 393595008261 ABC-ATPase subunit interface; other site 393595008262 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 393595008263 dimer interface [polypeptide binding]; other site 393595008264 conserved gate region; other site 393595008265 putative PBP binding loops; other site 393595008266 ABC-ATPase subunit interface; other site 393595008267 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 393595008268 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 393595008269 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 393595008270 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 393595008271 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 393595008272 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 393595008273 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 393595008274 proline aminopeptidase P II; Provisional; Region: PRK10879 393595008275 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 393595008276 active site 393595008277 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 393595008278 TIGR02449 family protein; Region: TIGR02449 393595008279 Cell division protein ZapA; Region: ZapA; pfam05164 393595008280 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 393595008281 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 393595008282 threonine dehydratase; Reviewed; Region: PRK09224 393595008283 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 393595008284 tetramer interface [polypeptide binding]; other site 393595008285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 393595008286 catalytic residue [active] 393595008287 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 393595008288 putative Ile/Val binding site [chemical binding]; other site 393595008289 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 393595008290 putative Ile/Val binding site [chemical binding]; other site 393595008291 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 393595008292 tetramer (dimer of dimers) interface [polypeptide binding]; other site 393595008293 active site 393595008294 dimer interface [polypeptide binding]; other site 393595008295 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 393595008296 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 393595008297 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 393595008298 META domain; Region: META; pfam03724 393595008299 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 393595008300 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 393595008301 intersubunit interface [polypeptide binding]; other site 393595008302 active site 393595008303 zinc binding site [ion binding]; other site 393595008304 Na+ binding site [ion binding]; other site 393595008305 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 393595008306 Phosphoglycerate kinase; Region: PGK; pfam00162 393595008307 substrate binding site [chemical binding]; other site 393595008308 hinge regions; other site 393595008309 ADP binding site [chemical binding]; other site 393595008310 catalytic site [active] 393595008311 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 393595008312 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 393595008313 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 393595008314 transketolase; Reviewed; Region: PRK12753 393595008315 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 393595008316 TPP-binding site [chemical binding]; other site 393595008317 dimer interface [polypeptide binding]; other site 393595008318 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 393595008319 PYR/PP interface [polypeptide binding]; other site 393595008320 dimer interface [polypeptide binding]; other site 393595008321 TPP binding site [chemical binding]; other site 393595008322 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 393595008323 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 393595008324 dimerization interface [polypeptide binding]; other site 393595008325 putative DNA binding site [nucleotide binding]; other site 393595008326 putative Zn2+ binding site [ion binding]; other site 393595008327 Methyltransferase domain; Region: Methyltransf_23; pfam13489 393595008328 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 393595008329 S-adenosylmethionine synthetase; Validated; Region: PRK05250 393595008330 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 393595008331 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 393595008332 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 393595008333 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 393595008334 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 393595008335 homotetramer interface [polypeptide binding]; other site 393595008336 ligand binding site [chemical binding]; other site 393595008337 catalytic site [active] 393595008338 NAD binding site [chemical binding]; other site 393595008339 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 393595008340 FAD binding site [chemical binding]; other site 393595008341 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 393595008342 putative deacylase active site [active] 393595008343 pyruvate kinase; Provisional; Region: PRK05826 393595008344 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 393595008345 domain interfaces; other site 393595008346 active site 393595008347 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 393595008348 putative efflux protein, MATE family; Region: matE; TIGR00797 393595008349 YrhK-like protein; Region: YrhK; pfam14145 393595008350 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 393595008351 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 393595008352 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 393595008353 Domain of unknown function DUF20; Region: UPF0118; pfam01594 393595008354 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 393595008355 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 393595008356 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 393595008357 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 393595008358 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 393595008359 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 393595008360 HlyD family secretion protein; Region: HlyD_3; pfam13437 393595008361 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 393595008362 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 393595008363 catalytic triad [active] 393595008364 dimer interface [polypeptide binding]; other site 393595008365 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 393595008366 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 393595008367 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 393595008368 dimerization interface [polypeptide binding]; other site 393595008369 DPS ferroxidase diiron center [ion binding]; other site 393595008370 ion pore; other site 393595008371 Haemolysin-III related; Region: HlyIII; cl03831 393595008372 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 393595008373 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 393595008374 dimerization interface [polypeptide binding]; other site 393595008375 putative DNA binding site [nucleotide binding]; other site 393595008376 putative Zn2+ binding site [ion binding]; other site 393595008377 Predicted transporter component [General function prediction only]; Region: COG2391 393595008378 Sulphur transport; Region: Sulf_transp; pfam04143 393595008379 Sulphur transport; Region: Sulf_transp; pfam04143 393595008380 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 393595008381 catalytic residues [active] 393595008382 dimer interface [polypeptide binding]; other site 393595008383 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 393595008384 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 393595008385 potential catalytic triad [active] 393595008386 conserved cys residue [active] 393595008387 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 393595008388 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 393595008389 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 393595008390 G1 box; other site 393595008391 GTP/Mg2+ binding site [chemical binding]; other site 393595008392 G2 box; other site 393595008393 Switch I region; other site 393595008394 G3 box; other site 393595008395 Switch II region; other site 393595008396 Herpesvirus latent membrane protein 1 (LMP1); Region: Herpes_LMP1; pfam05297 393595008397 Serine hydrolase; Region: Ser_hydrolase; cl17834 393595008398 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 393595008399 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 393595008400 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 393595008401 DNA binding residues [nucleotide binding] 393595008402 dimerization interface [polypeptide binding]; other site 393595008403 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 393595008404 nudix motif; other site 393595008405 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 393595008406 putative catalytic site [active] 393595008407 putative metal binding site [ion binding]; other site 393595008408 putative phosphate binding site [ion binding]; other site 393595008409 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 393595008410 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 393595008411 catalytic residues [active] 393595008412 hinge region; other site 393595008413 alpha helical domain; other site 393595008414 Cytochrome c553 [Energy production and conversion]; Region: COG2863 393595008415 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 393595008416 Cytochrome c; Region: Cytochrom_C; cl11414 393595008417 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 393595008418 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 393595008419 G1 box; other site 393595008420 GTP/Mg2+ binding site [chemical binding]; other site 393595008421 Switch I region; other site 393595008422 G2 box; other site 393595008423 G3 box; other site 393595008424 Switch II region; other site 393595008425 G4 box; other site 393595008426 G5 box; other site 393595008427 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 393595008428 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 393595008429 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 393595008430 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 393595008431 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 393595008432 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 393595008433 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 393595008434 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 393595008435 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 393595008436 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 393595008437 DNA polymerase I; Provisional; Region: PRK05755 393595008438 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 393595008439 active site 393595008440 metal binding site 1 [ion binding]; metal-binding site 393595008441 putative 5' ssDNA interaction site; other site 393595008442 metal binding site 3; metal-binding site 393595008443 metal binding site 2 [ion binding]; metal-binding site 393595008444 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 393595008445 putative DNA binding site [nucleotide binding]; other site 393595008446 putative metal binding site [ion binding]; other site 393595008447 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 393595008448 active site 393595008449 catalytic site [active] 393595008450 substrate binding site [chemical binding]; other site 393595008451 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 393595008452 active site 393595008453 DNA binding site [nucleotide binding] 393595008454 catalytic site [active] 393595008455 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 393595008456 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 393595008457 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595008458 active site 393595008459 OsmC-like protein; Region: OsmC; cl00767 393595008460 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 393595008461 Lipase (class 2); Region: Lipase_2; pfam01674 393595008462 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 393595008463 active site 393595008464 catalytic residues [active] 393595008465 metal binding site [ion binding]; metal-binding site 393595008466 GAF domain; Region: GAF; pfam01590 393595008467 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 393595008468 PAS domain S-box; Region: sensory_box; TIGR00229 393595008469 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 393595008470 putative active site [active] 393595008471 heme pocket [chemical binding]; other site 393595008472 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 393595008473 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 393595008474 metal binding site [ion binding]; metal-binding site 393595008475 active site 393595008476 I-site; other site 393595008477 YGGT family; Region: YGGT; pfam02325 393595008478 YGGT family; Region: YGGT; pfam02325 393595008479 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 393595008480 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 393595008481 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 393595008482 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 393595008483 catalytic residue [active] 393595008484 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 393595008485 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 393595008486 Walker A motif; other site 393595008487 ATP binding site [chemical binding]; other site 393595008488 Walker B motif; other site 393595008489 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 393595008490 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 393595008491 Walker A motif; other site 393595008492 ATP binding site [chemical binding]; other site 393595008493 Walker B motif; other site 393595008494 SlyX; Region: SlyX; pfam04102 393595008495 Predicted membrane protein [Function unknown]; Region: COG2119 393595008496 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 393595008497 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 393595008498 YaeQ protein; Region: YaeQ; pfam07152 393595008499 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 393595008500 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 393595008501 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 393595008502 arsenical-resistance protein; Region: acr3; TIGR00832 393595008503 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 393595008504 Low molecular weight phosphatase family; Region: LMWPc; cd00115 393595008505 active site 393595008506 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 393595008507 putative DNA binding site [nucleotide binding]; other site 393595008508 dimerization interface [polypeptide binding]; other site 393595008509 putative Zn2+ binding site [ion binding]; other site 393595008510 transcriptional regulator PhoU; Provisional; Region: PRK11115 393595008511 PhoU domain; Region: PhoU; pfam01895 393595008512 PhoU domain; Region: PhoU; pfam01895 393595008513 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 393595008514 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 393595008515 Walker A/P-loop; other site 393595008516 ATP binding site [chemical binding]; other site 393595008517 Q-loop/lid; other site 393595008518 ABC transporter signature motif; other site 393595008519 Walker B; other site 393595008520 D-loop; other site 393595008521 H-loop/switch region; other site 393595008522 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 393595008523 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 393595008524 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 393595008525 dimer interface [polypeptide binding]; other site 393595008526 conserved gate region; other site 393595008527 putative PBP binding loops; other site 393595008528 ABC-ATPase subunit interface; other site 393595008529 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 393595008530 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 393595008531 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 393595008532 dimer interface [polypeptide binding]; other site 393595008533 conserved gate region; other site 393595008534 putative PBP binding loops; other site 393595008535 ABC-ATPase subunit interface; other site 393595008536 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 393595008537 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 393595008538 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 393595008539 DctM-like transporters; Region: DctM; pfam06808 393595008540 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 393595008541 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 393595008542 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 393595008543 Part of AAA domain; Region: AAA_19; pfam13245 393595008544 Family description; Region: UvrD_C_2; pfam13538 393595008545 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 393595008546 PAS fold; Region: PAS_3; pfam08447 393595008547 putative active site [active] 393595008548 heme pocket [chemical binding]; other site 393595008549 PAS domain S-box; Region: sensory_box; TIGR00229 393595008550 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 393595008551 putative active site [active] 393595008552 heme pocket [chemical binding]; other site 393595008553 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 393595008554 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 393595008555 metal binding site [ion binding]; metal-binding site 393595008556 active site 393595008557 I-site; other site 393595008558 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 393595008559 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 393595008560 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 393595008561 putative mechanosensitive channel protein; Provisional; Region: PRK11465 393595008562 Mechanosensitive ion channel; Region: MS_channel; pfam00924 393595008563 short chain dehydrogenase; Validated; Region: PRK05855 393595008564 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 393595008565 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 393595008566 classical (c) SDRs; Region: SDR_c; cd05233 393595008567 NAD(P) binding site [chemical binding]; other site 393595008568 active site 393595008569 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 393595008570 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 393595008571 DNA binding residues [nucleotide binding] 393595008572 putative dimer interface [polypeptide binding]; other site 393595008573 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 393595008574 active site 393595008575 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 393595008576 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 393595008577 putative active site [active] 393595008578 catalytic site [active] 393595008579 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 393595008580 putative active site [active] 393595008581 catalytic site [active] 393595008582 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 393595008583 G4 box; other site 393595008584 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 393595008585 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 393595008586 active site 393595008587 metal binding site [ion binding]; metal-binding site 393595008588 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 393595008589 DNA ligase; Provisional; Region: PRK09125 393595008590 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 393595008591 DNA binding site [nucleotide binding] 393595008592 active site 393595008593 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 393595008594 DNA binding site [nucleotide binding] 393595008595 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 393595008596 methionine sulfoxide reductase B; Provisional; Region: PRK00222 393595008597 SelR domain; Region: SelR; pfam01641 393595008598 Protein of unknown function (DUF808); Region: DUF808; pfam05661 393595008599 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 393595008600 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 393595008601 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 393595008602 DNA binding residues [nucleotide binding] 393595008603 dimerization interface [polypeptide binding]; other site 393595008604 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 393595008605 Fatty acid desaturase; Region: FA_desaturase; pfam00487 393595008606 Di-iron ligands [ion binding]; other site 393595008607 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 393595008608 Rubredoxin; Region: Rubredoxin; pfam00301 393595008609 iron binding site [ion binding]; other site 393595008610 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 393595008611 Rubredoxin; Region: Rubredoxin; pfam00301 393595008612 iron binding site [ion binding]; other site 393595008613 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 393595008614 NAD(P) binding site [chemical binding]; other site 393595008615 catalytic residues [active] 393595008616 choline dehydrogenase; Validated; Region: PRK02106 393595008617 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 393595008618 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 393595008619 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 393595008620 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 393595008621 G1 box; other site 393595008622 GTP/Mg2+ binding site [chemical binding]; other site 393595008623 G2 box; other site 393595008624 Switch I region; other site 393595008625 Switch II region; other site 393595008626 G4 box; other site 393595008627 G5 box; other site 393595008628 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 393595008629 UreF; Region: UreF; pfam01730 393595008630 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 393595008631 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 393595008632 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 393595008633 dimer interface [polypeptide binding]; other site 393595008634 catalytic residues [active] 393595008635 urease subunit alpha; Reviewed; Region: ureC; PRK13207 393595008636 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 393595008637 subunit interactions [polypeptide binding]; other site 393595008638 active site 393595008639 flap region; other site 393595008640 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 393595008641 gamma-beta subunit interface [polypeptide binding]; other site 393595008642 alpha-beta subunit interface [polypeptide binding]; other site 393595008643 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 393595008644 alpha-gamma subunit interface [polypeptide binding]; other site 393595008645 beta-gamma subunit interface [polypeptide binding]; other site 393595008646 UreD urease accessory protein; Region: UreD; cl00530 393595008647 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 393595008648 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 393595008649 glutaminase active site [active] 393595008650 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 393595008651 dimer interface [polypeptide binding]; other site 393595008652 active site 393595008653 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 393595008654 dimer interface [polypeptide binding]; other site 393595008655 active site 393595008656 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 393595008657 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 393595008658 Substrate binding site; other site 393595008659 Mg++ binding site; other site 393595008660 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 393595008661 active site 393595008662 substrate binding site [chemical binding]; other site 393595008663 CoA binding site [chemical binding]; other site 393595008664 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 393595008665 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 393595008666 gamma subunit interface [polypeptide binding]; other site 393595008667 epsilon subunit interface [polypeptide binding]; other site 393595008668 LBP interface [polypeptide binding]; other site 393595008669 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 393595008670 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 393595008671 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 393595008672 alpha subunit interaction interface [polypeptide binding]; other site 393595008673 Walker A motif; other site 393595008674 ATP binding site [chemical binding]; other site 393595008675 Walker B motif; other site 393595008676 inhibitor binding site; inhibition site 393595008677 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 393595008678 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 393595008679 core domain interface [polypeptide binding]; other site 393595008680 delta subunit interface [polypeptide binding]; other site 393595008681 epsilon subunit interface [polypeptide binding]; other site 393595008682 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 393595008683 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 393595008684 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 393595008685 beta subunit interaction interface [polypeptide binding]; other site 393595008686 Walker A motif; other site 393595008687 ATP binding site [chemical binding]; other site 393595008688 Walker B motif; other site 393595008689 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 393595008690 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 393595008691 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 393595008692 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 393595008693 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 393595008694 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 393595008695 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 393595008696 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 393595008697 ATP synthase I chain; Region: ATP_synt_I; cl09170 393595008698 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 393595008699 ParB-like nuclease domain; Region: ParB; smart00470 393595008700 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 393595008701 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 393595008702 P loop; other site 393595008703 Nucleotide binding site [chemical binding]; other site 393595008704 DTAP/Switch II; other site 393595008705 Switch I; other site 393595008706 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 393595008707 Magnesium ion binding site [ion binding]; other site 393595008708 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 393595008709 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 393595008710 S-adenosylmethionine binding site [chemical binding]; other site 393595008711 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 393595008712 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 393595008713 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 393595008714 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 393595008715 potassium/proton antiporter; Reviewed; Region: PRK05326 393595008716 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 393595008717 TrkA-C domain; Region: TrkA_C; pfam02080 393595008718 Transporter associated domain; Region: CorC_HlyC; smart01091 393595008719 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 393595008720 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 393595008721 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 393595008722 active site 393595008723 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 393595008724 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 393595008725 tetramer interface [polypeptide binding]; other site 393595008726 active site 393595008727 Mg2+/Mn2+ binding site [ion binding]; other site 393595008728 isocitrate lyase; Region: PLN02892 393595008729 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 393595008730 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 393595008731 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 393595008732 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 393595008733 active site 393595008734 phosphate binding residues; other site 393595008735 catalytic residues [active] 393595008736 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 393595008737 DNA-binding site [nucleotide binding]; DNA binding site 393595008738 RNA-binding motif; other site 393595008739 Protein of unknown function DUF45; Region: DUF45; pfam01863 393595008740 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 393595008741 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 393595008742 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 393595008743 HlyD family secretion protein; Region: HlyD_3; pfam13437 393595008744 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 393595008745 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 393595008746 dimer interface [polypeptide binding]; other site 393595008747 acyl-activating enzyme (AAE) consensus motif; other site 393595008748 putative active site [active] 393595008749 AMP binding site [chemical binding]; other site 393595008750 putative CoA binding site [chemical binding]; other site 393595008751 fumarate hydratase; Reviewed; Region: fumC; PRK00485 393595008752 Class II fumarases; Region: Fumarase_classII; cd01362 393595008753 active site 393595008754 tetramer interface [polypeptide binding]; other site 393595008755 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 393595008756 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 393595008757 Uncharacterized conserved protein [Function unknown]; Region: COG2128 393595008758 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 393595008759 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 393595008760 trmE is a tRNA modification GTPase; Region: trmE; cd04164 393595008761 G1 box; other site 393595008762 GTP/Mg2+ binding site [chemical binding]; other site 393595008763 Switch I region; other site 393595008764 G2 box; other site 393595008765 Switch II region; other site 393595008766 G3 box; other site 393595008767 G4 box; other site 393595008768 G5 box; other site 393595008769 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 393595008770 membrane protein insertase; Provisional; Region: PRK01318 393595008771 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 393595008772 Ribonuclease P; Region: Ribonuclease_P; cl00457 393595008773 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399