-- dump date 20140620_013832 -- class Genbank::misc_feature -- table misc_feature_note -- id note 379731000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 379731000002 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 379731000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 379731000004 Walker A motif; other site 379731000005 ATP binding site [chemical binding]; other site 379731000006 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 379731000007 Walker B motif; other site 379731000008 arginine finger; other site 379731000009 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 379731000010 DnaA box-binding interface [nucleotide binding]; other site 379731000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 379731000012 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 379731000013 putative DNA binding surface [nucleotide binding]; other site 379731000014 dimer interface [polypeptide binding]; other site 379731000015 beta-clamp/clamp loader binding surface; other site 379731000016 beta-clamp/translesion DNA polymerase binding surface; other site 379731000017 recombination protein F; Reviewed; Region: recF; PRK00064 379731000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731000019 Walker A/P-loop; other site 379731000020 ATP binding site [chemical binding]; other site 379731000021 Q-loop/lid; other site 379731000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731000023 ABC transporter signature motif; other site 379731000024 Walker B; other site 379731000025 D-loop; other site 379731000026 H-loop/switch region; other site 379731000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 379731000028 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 379731000029 ATP binding site [chemical binding]; other site 379731000030 Mg2+ binding site [ion binding]; other site 379731000031 G-X-G motif; other site 379731000032 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 379731000033 anchoring element; other site 379731000034 dimer interface [polypeptide binding]; other site 379731000035 ATP binding site [chemical binding]; other site 379731000036 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 379731000037 active site 379731000038 putative metal-binding site [ion binding]; other site 379731000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 379731000040 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 379731000041 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 379731000042 catalytic residue [active] 379731000043 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 379731000044 catalytic residues [active] 379731000045 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 379731000046 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 379731000047 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 379731000048 heme-binding site [chemical binding]; other site 379731000049 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731000050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731000051 metal binding site [ion binding]; metal-binding site 379731000052 active site 379731000053 I-site; other site 379731000054 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 379731000055 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 379731000056 putative acyl-acceptor binding pocket; other site 379731000057 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 379731000058 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 379731000059 active site 379731000060 motif I; other site 379731000061 motif II; other site 379731000062 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 379731000063 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 379731000064 HD domain; Region: HD; pfam01966 379731000065 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 379731000066 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 379731000067 dimer interface [polypeptide binding]; other site 379731000068 motif 1; other site 379731000069 active site 379731000070 motif 2; other site 379731000071 motif 3; other site 379731000072 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 379731000073 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 379731000074 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 379731000075 putative acyl-acceptor binding pocket; other site 379731000076 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 379731000077 TPR motif; other site 379731000078 Tetratricopeptide repeat; Region: TPR_16; pfam13432 379731000079 binding surface 379731000080 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 379731000081 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 379731000082 Walker A/P-loop; other site 379731000083 ATP binding site [chemical binding]; other site 379731000084 Q-loop/lid; other site 379731000085 ABC transporter signature motif; other site 379731000086 Walker B; other site 379731000087 D-loop; other site 379731000088 H-loop/switch region; other site 379731000089 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 379731000090 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731000091 dimer interface [polypeptide binding]; other site 379731000092 conserved gate region; other site 379731000093 putative PBP binding loops; other site 379731000094 ABC-ATPase subunit interface; other site 379731000095 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 379731000096 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731000097 dimer interface [polypeptide binding]; other site 379731000098 conserved gate region; other site 379731000099 putative PBP binding loops; other site 379731000100 ABC-ATPase subunit interface; other site 379731000101 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 379731000102 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 379731000103 substrate binding pocket [chemical binding]; other site 379731000104 membrane-bound complex binding site; other site 379731000105 hinge residues; other site 379731000106 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 379731000107 TrkA-N domain; Region: TrkA_N; pfam02254 379731000108 TrkA-C domain; Region: TrkA_C; pfam02080 379731000109 TrkA-N domain; Region: TrkA_N; pfam02254 379731000110 TrkA-C domain; Region: TrkA_C; pfam02080 379731000111 16S rRNA methyltransferase B; Provisional; Region: PRK10901 379731000112 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 379731000113 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 379731000114 S-adenosylmethionine binding site [chemical binding]; other site 379731000115 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 379731000116 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 379731000117 putative active site [active] 379731000118 substrate binding site [chemical binding]; other site 379731000119 putative cosubstrate binding site; other site 379731000120 catalytic site [active] 379731000121 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 379731000122 substrate binding site [chemical binding]; other site 379731000123 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 379731000124 active site 379731000125 catalytic residues [active] 379731000126 metal binding site [ion binding]; metal-binding site 379731000127 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 379731000128 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 379731000129 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 379731000130 DNA protecting protein DprA; Region: dprA; TIGR00732 379731000131 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 379731000132 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 379731000133 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 379731000134 NADP binding site [chemical binding]; other site 379731000135 dimer interface [polypeptide binding]; other site 379731000136 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 379731000137 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 379731000138 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 379731000139 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 379731000140 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 379731000141 shikimate binding site; other site 379731000142 NAD(P) binding site [chemical binding]; other site 379731000143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731000144 active site 379731000145 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 379731000146 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 379731000147 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 379731000148 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 379731000149 N-terminal plug; other site 379731000150 ligand-binding site [chemical binding]; other site 379731000151 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 379731000152 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 379731000153 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 379731000154 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 379731000155 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 379731000156 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 379731000157 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731000158 dimer interface [polypeptide binding]; other site 379731000159 conserved gate region; other site 379731000160 ABC-ATPase subunit interface; other site 379731000161 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 379731000162 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 379731000163 Walker A/P-loop; other site 379731000164 ATP binding site [chemical binding]; other site 379731000165 Q-loop/lid; other site 379731000166 ABC transporter signature motif; other site 379731000167 Walker B; other site 379731000168 D-loop; other site 379731000169 H-loop/switch region; other site 379731000170 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 379731000171 hydroperoxidase II; Provisional; Region: katE; PRK11249 379731000172 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 379731000173 tetramer interface [polypeptide binding]; other site 379731000174 heme binding pocket [chemical binding]; other site 379731000175 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 379731000176 domain interactions; other site 379731000177 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 379731000178 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 379731000179 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 379731000180 ABC-ATPase subunit interface; other site 379731000181 dimer interface [polypeptide binding]; other site 379731000182 putative PBP binding regions; other site 379731000183 anchored repeat-type ABC transporter, ATP-binding subunit; Region: anch_rpt_ABC; TIGR03771 379731000184 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731000185 Walker A/P-loop; other site 379731000186 ATP binding site [chemical binding]; other site 379731000187 Q-loop/lid; other site 379731000188 ABC transporter signature motif; other site 379731000189 Walker B; other site 379731000190 D-loop; other site 379731000191 H-loop/switch region; other site 379731000192 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 379731000193 metal binding site 2 [ion binding]; metal-binding site 379731000194 putative DNA binding helix; other site 379731000195 metal binding site 1 [ion binding]; metal-binding site 379731000196 dimer interface [polypeptide binding]; other site 379731000197 structural Zn2+ binding site [ion binding]; other site 379731000198 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 379731000199 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 379731000200 metal binding site [ion binding]; metal-binding site 379731000201 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 379731000202 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 379731000203 inhibitor-cofactor binding pocket; inhibition site 379731000204 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731000205 catalytic residue [active] 379731000206 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 379731000207 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 379731000208 NAD(P) binding site [chemical binding]; other site 379731000209 catalytic residues [active] 379731000210 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 379731000211 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 379731000212 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 379731000213 DXD motif; other site 379731000214 HEAT repeats; Region: HEAT_2; pfam13646 379731000215 Response regulator receiver domain; Region: Response_reg; pfam00072 379731000216 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731000217 active site 379731000218 phosphorylation site [posttranslational modification] 379731000219 intermolecular recognition site; other site 379731000220 dimerization interface [polypeptide binding]; other site 379731000221 CHASE3 domain; Region: CHASE3; pfam05227 379731000222 PAS domain S-box; Region: sensory_box; TIGR00229 379731000223 PAS domain; Region: PAS; smart00091 379731000224 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731000225 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 379731000226 dimer interface [polypeptide binding]; other site 379731000227 phosphorylation site [posttranslational modification] 379731000228 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 379731000229 ATP binding site [chemical binding]; other site 379731000230 Mg2+ binding site [ion binding]; other site 379731000231 G-X-G motif; other site 379731000232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731000233 active site 379731000234 phosphorylation site [posttranslational modification] 379731000235 intermolecular recognition site; other site 379731000236 dimerization interface [polypeptide binding]; other site 379731000237 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731000238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731000239 active site 379731000240 phosphorylation site [posttranslational modification] 379731000241 intermolecular recognition site; other site 379731000242 dimerization interface [polypeptide binding]; other site 379731000243 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 379731000244 putative binding surface; other site 379731000245 active site 379731000246 Response regulator receiver domain; Region: Response_reg; pfam00072 379731000247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731000248 active site 379731000249 phosphorylation site [posttranslational modification] 379731000250 intermolecular recognition site; other site 379731000251 dimerization interface [polypeptide binding]; other site 379731000252 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731000253 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731000254 metal binding site [ion binding]; metal-binding site 379731000255 active site 379731000256 I-site; other site 379731000257 Response regulator receiver domain; Region: Response_reg; pfam00072 379731000258 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731000259 active site 379731000260 phosphorylation site [posttranslational modification] 379731000261 intermolecular recognition site; other site 379731000262 dimerization interface [polypeptide binding]; other site 379731000263 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 379731000264 GAF domain; Region: GAF; pfam01590 379731000265 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 379731000266 PAS domain; Region: PAS_9; pfam13426 379731000267 putative active site [active] 379731000268 heme pocket [chemical binding]; other site 379731000269 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 379731000270 PAS fold; Region: PAS_3; pfam08447 379731000271 putative active site [active] 379731000272 heme pocket [chemical binding]; other site 379731000273 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 379731000274 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 379731000275 putative active site [active] 379731000276 heme pocket [chemical binding]; other site 379731000277 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 379731000278 dimer interface [polypeptide binding]; other site 379731000279 phosphorylation site [posttranslational modification] 379731000280 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 379731000281 ATP binding site [chemical binding]; other site 379731000282 Mg2+ binding site [ion binding]; other site 379731000283 G-X-G motif; other site 379731000284 Response regulator receiver domain; Region: Response_reg; pfam00072 379731000285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731000286 active site 379731000287 phosphorylation site [posttranslational modification] 379731000288 intermolecular recognition site; other site 379731000289 dimerization interface [polypeptide binding]; other site 379731000290 PAS fold; Region: PAS_3; pfam08447 379731000291 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 379731000292 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 379731000293 putative active site [active] 379731000294 heme pocket [chemical binding]; other site 379731000295 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 379731000296 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 379731000297 putative active site [active] 379731000298 heme pocket [chemical binding]; other site 379731000299 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 379731000300 ATP binding site [chemical binding]; other site 379731000301 Mg2+ binding site [ion binding]; other site 379731000302 G-X-G motif; other site 379731000303 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 379731000304 Fatty acid desaturase; Region: FA_desaturase; pfam00487 379731000305 Di-iron ligands [ion binding]; other site 379731000306 Transposase; Region: DDE_Tnp_ISL3; pfam01610 379731000307 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 379731000308 PAS fold; Region: PAS_3; pfam08447 379731000309 putative active site [active] 379731000310 heme pocket [chemical binding]; other site 379731000311 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731000312 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731000313 metal binding site [ion binding]; metal-binding site 379731000314 active site 379731000315 I-site; other site 379731000316 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 379731000317 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 379731000318 active site 379731000319 agmatine deiminase; Provisional; Region: PRK13551 379731000320 agmatine deiminase; Region: agmatine_aguA; TIGR03380 379731000321 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 379731000322 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 379731000323 putative active site; other site 379731000324 catalytic triad [active] 379731000325 putative dimer interface [polypeptide binding]; other site 379731000326 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 379731000327 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731000328 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 379731000329 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 379731000330 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 379731000331 Peptidase C26; Region: Peptidase_C26; pfam07722 379731000332 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 379731000333 catalytic triad [active] 379731000334 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 379731000335 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 379731000336 putative aminotransferase; Validated; Region: PRK07480 379731000337 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 379731000338 inhibitor-cofactor binding pocket; inhibition site 379731000339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731000340 catalytic residue [active] 379731000341 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 379731000342 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 379731000343 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 379731000344 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 379731000345 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 379731000346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731000347 Walker A/P-loop; other site 379731000348 ATP binding site [chemical binding]; other site 379731000349 Q-loop/lid; other site 379731000350 ABC transporter signature motif; other site 379731000351 Walker B; other site 379731000352 D-loop; other site 379731000353 H-loop/switch region; other site 379731000354 TOBE domain; Region: TOBE_2; pfam08402 379731000355 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731000356 dimer interface [polypeptide binding]; other site 379731000357 conserved gate region; other site 379731000358 putative PBP binding loops; other site 379731000359 ABC-ATPase subunit interface; other site 379731000360 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 379731000361 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731000362 dimer interface [polypeptide binding]; other site 379731000363 conserved gate region; other site 379731000364 putative PBP binding loops; other site 379731000365 ABC-ATPase subunit interface; other site 379731000366 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 379731000367 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 379731000368 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 379731000369 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 379731000370 DctM-like transporters; Region: DctM; pfam06808 379731000371 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 379731000372 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 379731000373 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 379731000374 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 379731000375 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 379731000376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731000377 active site 379731000378 phosphorylation site [posttranslational modification] 379731000379 intermolecular recognition site; other site 379731000380 dimerization interface [polypeptide binding]; other site 379731000381 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 379731000382 Walker A motif; other site 379731000383 ATP binding site [chemical binding]; other site 379731000384 Walker B motif; other site 379731000385 arginine finger; other site 379731000386 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 379731000387 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 379731000388 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 379731000389 dimer interface [polypeptide binding]; other site 379731000390 phosphorylation site [posttranslational modification] 379731000391 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 379731000392 ATP binding site [chemical binding]; other site 379731000393 G-X-G motif; other site 379731000394 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 379731000395 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 379731000396 NADP binding site [chemical binding]; other site 379731000397 active site 379731000398 putative substrate binding site [chemical binding]; other site 379731000399 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 379731000400 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 379731000401 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 379731000402 substrate binding site; other site 379731000403 tetramer interface; other site 379731000404 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 379731000405 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 379731000406 NAD binding site [chemical binding]; other site 379731000407 substrate binding site [chemical binding]; other site 379731000408 homodimer interface [polypeptide binding]; other site 379731000409 active site 379731000410 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 379731000411 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 379731000412 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 379731000413 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 379731000414 Walker A/P-loop; other site 379731000415 ATP binding site [chemical binding]; other site 379731000416 Q-loop/lid; other site 379731000417 ABC transporter signature motif; other site 379731000418 Walker B; other site 379731000419 D-loop; other site 379731000420 H-loop/switch region; other site 379731000421 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 379731000422 Walker A/P-loop; other site 379731000423 ATP binding site [chemical binding]; other site 379731000424 Q-loop/lid; other site 379731000425 ABC transporter signature motif; other site 379731000426 Walker B; other site 379731000427 D-loop; other site 379731000428 H-loop/switch region; other site 379731000429 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 379731000430 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 379731000431 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 379731000432 HlyD family secretion protein; Region: HlyD_3; pfam13437 379731000433 Protein of unknown function (DUF330); Region: DUF330; cl01135 379731000434 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 379731000435 mce related protein; Region: MCE; pfam02470 379731000436 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 379731000437 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731000438 Walker A/P-loop; other site 379731000439 ATP binding site [chemical binding]; other site 379731000440 Q-loop/lid; other site 379731000441 ABC transporter signature motif; other site 379731000442 Walker B; other site 379731000443 D-loop; other site 379731000444 H-loop/switch region; other site 379731000445 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 379731000446 Permease; Region: Permease; pfam02405 379731000447 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 379731000448 putative heme binding pocket [chemical binding]; other site 379731000449 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 379731000450 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 379731000451 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 379731000452 tetramerization interface [polypeptide binding]; other site 379731000453 NAD(P) binding site [chemical binding]; other site 379731000454 catalytic residues [active] 379731000455 Cytochrome C' Region: Cytochrom_C_2; pfam01322 379731000456 Response regulator receiver domain; Region: Response_reg; pfam00072 379731000457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731000458 active site 379731000459 phosphorylation site [posttranslational modification] 379731000460 intermolecular recognition site; other site 379731000461 dimerization interface [polypeptide binding]; other site 379731000462 HDOD domain; Region: HDOD; pfam08668 379731000463 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 379731000464 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 379731000465 substrate binding site [chemical binding]; other site 379731000466 oxyanion hole (OAH) forming residues; other site 379731000467 trimer interface [polypeptide binding]; other site 379731000468 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 379731000469 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 379731000470 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 379731000471 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 379731000472 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 379731000473 FAD binding site [chemical binding]; other site 379731000474 substrate binding site [chemical binding]; other site 379731000475 catalytic base [active] 379731000476 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 379731000477 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 379731000478 active site 379731000479 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731000480 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731000481 putative substrate translocation pore; other site 379731000482 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 379731000483 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 379731000484 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731000485 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 379731000486 Transcriptional regulator [Transcription]; Region: IclR; COG1414 379731000487 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 379731000488 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 379731000489 acyl-activating enzyme (AAE) consensus motif; other site 379731000490 putative AMP binding site [chemical binding]; other site 379731000491 putative active site [active] 379731000492 putative CoA binding site [chemical binding]; other site 379731000493 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 379731000494 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 379731000495 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 379731000496 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 379731000497 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 379731000498 active site 379731000499 dimer interface [polypeptide binding]; other site 379731000500 effector binding site; other site 379731000501 TSCPD domain; Region: TSCPD; pfam12637 379731000502 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 379731000503 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 379731000504 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 379731000505 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 379731000506 putative active site [active] 379731000507 putative substrate binding site [chemical binding]; other site 379731000508 ATP binding site [chemical binding]; other site 379731000509 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 379731000510 DNA polymerase I; Provisional; Region: PRK05755 379731000511 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 379731000512 active site 379731000513 metal binding site 1 [ion binding]; metal-binding site 379731000514 putative 5' ssDNA interaction site; other site 379731000515 metal binding site 3; metal-binding site 379731000516 metal binding site 2 [ion binding]; metal-binding site 379731000517 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 379731000518 putative DNA binding site [nucleotide binding]; other site 379731000519 putative metal binding site [ion binding]; other site 379731000520 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 379731000521 active site 379731000522 catalytic site [active] 379731000523 substrate binding site [chemical binding]; other site 379731000524 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 379731000525 active site 379731000526 DNA binding site [nucleotide binding] 379731000527 catalytic site [active] 379731000528 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 379731000529 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 379731000530 conserverd hypothetical protein; Region: TIGR02448 379731000531 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 379731000532 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 379731000533 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 379731000534 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731000535 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 379731000536 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 379731000537 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 379731000538 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 379731000539 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 379731000540 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 379731000541 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 379731000542 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 379731000543 ligand binding site [chemical binding]; other site 379731000544 homodimer interface [polypeptide binding]; other site 379731000545 NAD(P) binding site [chemical binding]; other site 379731000546 trimer interface B [polypeptide binding]; other site 379731000547 trimer interface A [polypeptide binding]; other site 379731000548 type II secretion system protein E; Region: type_II_gspE; TIGR02533 379731000549 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 379731000550 Walker A motif; other site 379731000551 ATP binding site [chemical binding]; other site 379731000552 Walker B motif; other site 379731000553 type II secretion system protein F; Region: GspF; TIGR02120 379731000554 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 379731000555 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 379731000556 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 379731000557 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 379731000558 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 379731000559 type II secretion system protein I; Region: gspI; TIGR01707 379731000560 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 379731000561 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 379731000562 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 379731000563 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 379731000564 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 379731000565 GspL periplasmic domain; Region: GspL_C; pfam12693 379731000566 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 379731000567 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 379731000568 putative deacylase active site [active] 379731000569 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 379731000570 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 379731000571 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 379731000572 generic binding surface II; other site 379731000573 ssDNA binding site; other site 379731000574 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 379731000575 ATP binding site [chemical binding]; other site 379731000576 putative Mg++ binding site [ion binding]; other site 379731000577 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 379731000578 nucleotide binding region [chemical binding]; other site 379731000579 ATP-binding site [chemical binding]; other site 379731000580 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 379731000581 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731000582 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 379731000583 dimerization interface [polypeptide binding]; other site 379731000584 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 379731000585 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 379731000586 putative NAD(P) binding site [chemical binding]; other site 379731000587 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 379731000588 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 379731000589 NAD binding site [chemical binding]; other site 379731000590 catalytic Zn binding site [ion binding]; other site 379731000591 structural Zn binding site [ion binding]; other site 379731000592 Predicted permeases [General function prediction only]; Region: COG0679 379731000593 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 379731000594 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 379731000595 S-adenosylmethionine binding site [chemical binding]; other site 379731000596 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 379731000597 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 379731000598 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 379731000599 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 379731000600 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 379731000601 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 379731000602 putative active site [active] 379731000603 heme pocket [chemical binding]; other site 379731000604 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 379731000605 dimer interface [polypeptide binding]; other site 379731000606 phosphorylation site [posttranslational modification] 379731000607 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 379731000608 ATP binding site [chemical binding]; other site 379731000609 Mg2+ binding site [ion binding]; other site 379731000610 G-X-G motif; other site 379731000611 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731000612 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731000613 active site 379731000614 phosphorylation site [posttranslational modification] 379731000615 intermolecular recognition site; other site 379731000616 dimerization interface [polypeptide binding]; other site 379731000617 Response regulator receiver domain; Region: Response_reg; pfam00072 379731000618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731000619 active site 379731000620 phosphorylation site [posttranslational modification] 379731000621 intermolecular recognition site; other site 379731000622 dimerization interface [polypeptide binding]; other site 379731000623 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 379731000624 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 379731000625 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 379731000626 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 379731000627 N-terminal plug; other site 379731000628 ligand-binding site [chemical binding]; other site 379731000629 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 379731000630 SnoaL-like domain; Region: SnoaL_3; pfam13474 379731000631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 379731000632 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 379731000633 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 379731000634 DNA binding residues [nucleotide binding] 379731000635 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 379731000636 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731000637 active site 379731000638 phosphorylation site [posttranslational modification] 379731000639 intermolecular recognition site; other site 379731000640 dimerization interface [polypeptide binding]; other site 379731000641 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 379731000642 Walker A motif; other site 379731000643 ATP binding site [chemical binding]; other site 379731000644 Walker B motif; other site 379731000645 arginine finger; other site 379731000646 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 379731000647 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 379731000648 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 379731000649 dimer interface [polypeptide binding]; other site 379731000650 phosphorylation site [posttranslational modification] 379731000651 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 379731000652 ATP binding site [chemical binding]; other site 379731000653 Mg2+ binding site [ion binding]; other site 379731000654 G-X-G motif; other site 379731000655 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 379731000656 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 379731000657 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 379731000658 Zn2+ binding site [ion binding]; other site 379731000659 Mg2+ binding site [ion binding]; other site 379731000660 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 379731000661 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 379731000662 Sulfate transporter family; Region: Sulfate_transp; pfam00916 379731000663 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 379731000664 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 379731000665 Ligand Binding Site [chemical binding]; other site 379731000666 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 379731000667 Ligand Binding Site [chemical binding]; other site 379731000668 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 379731000669 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 379731000670 S-adenosylmethionine binding site [chemical binding]; other site 379731000671 Predicted peroxiredoxins [General function prediction only]; Region: COG2044 379731000672 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 379731000673 lipoyl attachment site [posttranslational modification]; other site 379731000674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731000675 NAD(P) binding site [chemical binding]; other site 379731000676 active site 379731000677 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 379731000678 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 379731000679 G1 box; other site 379731000680 putative GEF interaction site [polypeptide binding]; other site 379731000681 GTP/Mg2+ binding site [chemical binding]; other site 379731000682 Switch I region; other site 379731000683 G2 box; other site 379731000684 G3 box; other site 379731000685 Switch II region; other site 379731000686 G4 box; other site 379731000687 G5 box; other site 379731000688 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 379731000689 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 379731000690 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 379731000691 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 379731000692 selenocysteine synthase; Provisional; Region: PRK04311 379731000693 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 379731000694 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 379731000695 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 379731000696 catalytic residue [active] 379731000697 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 379731000698 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 379731000699 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 379731000700 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 379731000701 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 379731000702 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 379731000703 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 379731000704 molybdopterin cofactor binding site; other site 379731000705 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 379731000706 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 379731000707 molybdopterin cofactor binding site; other site 379731000708 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 379731000709 Cupin; Region: Cupin_6; pfam12852 379731000710 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731000711 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 379731000712 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731000713 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 379731000714 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 379731000715 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 379731000716 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 379731000717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 379731000718 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 379731000719 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 379731000720 Part of AAA domain; Region: AAA_19; pfam13245 379731000721 Family description; Region: UvrD_C_2; pfam13538 379731000722 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 379731000723 putative active site [active] 379731000724 heme pocket [chemical binding]; other site 379731000725 RNase II stability modulator; Provisional; Region: PRK10060 379731000726 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 379731000727 putative active site [active] 379731000728 heme pocket [chemical binding]; other site 379731000729 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731000730 metal binding site [ion binding]; metal-binding site 379731000731 active site 379731000732 I-site; other site 379731000733 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 379731000734 putative protease; Provisional; Region: PRK15452 379731000735 Peptidase family U32; Region: Peptidase_U32; pfam01136 379731000736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 379731000737 aspartate kinase; Validated; Region: PRK09181 379731000738 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 379731000739 nucleotide binding site [chemical binding]; other site 379731000740 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 379731000741 allosteric regulatory residue; other site 379731000742 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 379731000743 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 379731000744 Ectoine synthase; Region: Ectoine_synth; pfam06339 379731000745 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 379731000746 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 379731000747 inhibitor-cofactor binding pocket; inhibition site 379731000748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731000749 catalytic residue [active] 379731000750 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 379731000751 Coenzyme A binding pocket [chemical binding]; other site 379731000752 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 379731000753 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 379731000754 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 379731000755 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 379731000756 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 379731000757 putative active site [active] 379731000758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731000759 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731000760 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 379731000761 putative dimerization interface [polypeptide binding]; other site 379731000762 pyruvate carboxylase subunit A; Validated; Region: PRK07178 379731000763 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 379731000764 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 379731000765 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 379731000766 pyruvate carboxylase subunit B; Validated; Region: PRK09282 379731000767 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 379731000768 active site 379731000769 catalytic residues [active] 379731000770 metal binding site [ion binding]; metal-binding site 379731000771 homodimer binding site [polypeptide binding]; other site 379731000772 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 379731000773 carboxyltransferase (CT) interaction site; other site 379731000774 biotinylation site [posttranslational modification]; other site 379731000775 Domain of unknown function (DUF897); Region: DUF897; cl01312 379731000776 glutaminase; Provisional; Region: PRK00971 379731000777 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 379731000778 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 379731000779 active site clefts [active] 379731000780 zinc binding site [ion binding]; other site 379731000781 dimer interface [polypeptide binding]; other site 379731000782 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 379731000783 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 379731000784 active site 379731000785 homodimer interface [polypeptide binding]; other site 379731000786 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 379731000787 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 379731000788 Helix-turn-helix domain; Region: HTH_19; pfam12844 379731000789 non-specific DNA binding site [nucleotide binding]; other site 379731000790 salt bridge; other site 379731000791 sequence-specific DNA binding site [nucleotide binding]; other site 379731000792 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 379731000793 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 379731000794 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 379731000795 Aspartase; Region: Aspartase; cd01357 379731000796 active sites [active] 379731000797 tetramer interface [polypeptide binding]; other site 379731000798 cell density-dependent motility repressor; Provisional; Region: PRK10082 379731000799 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731000800 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 379731000801 dimerization interface [polypeptide binding]; other site 379731000802 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 379731000803 Subfamily of fatty acid CoA ligase (FACL) similar to Fum10p of Gibberella moniliformis; Region: FACL_fum10p_like; cd05926 379731000804 acyl-activating enzyme (AAE) consensus motif; other site 379731000805 putative AMP binding site [chemical binding]; other site 379731000806 putative active site [active] 379731000807 putative CoA binding site [chemical binding]; other site 379731000808 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 379731000809 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 379731000810 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 379731000811 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 379731000812 dimer interface [polypeptide binding]; other site 379731000813 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 379731000814 active site 379731000815 Fe binding site [ion binding]; other site 379731000816 Cache domain; Region: Cache_1; pfam02743 379731000817 PAS domain S-box; Region: sensory_box; TIGR00229 379731000818 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 379731000819 putative active site [active] 379731000820 heme pocket [chemical binding]; other site 379731000821 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731000822 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 379731000823 dimer interface [polypeptide binding]; other site 379731000824 phosphorylation site [posttranslational modification] 379731000825 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 379731000826 ATP binding site [chemical binding]; other site 379731000827 Mg2+ binding site [ion binding]; other site 379731000828 G-X-G motif; other site 379731000829 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 379731000830 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 379731000831 ATP-grasp domain; Region: ATP-grasp; pfam02222 379731000832 Predicted membrane protein [Function unknown]; Region: COG2261 379731000833 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 379731000834 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 379731000835 active site 379731000836 Fe-S cluster binding site [ion binding]; other site 379731000837 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 379731000838 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 379731000839 putative ligand binding site [chemical binding]; other site 379731000840 putative NAD binding site [chemical binding]; other site 379731000841 catalytic site [active] 379731000842 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 379731000843 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 379731000844 Walker A/P-loop; other site 379731000845 ATP binding site [chemical binding]; other site 379731000846 Q-loop/lid; other site 379731000847 ABC transporter signature motif; other site 379731000848 Walker B; other site 379731000849 D-loop; other site 379731000850 H-loop/switch region; other site 379731000851 TOBE-like domain; Region: TOBE_3; pfam12857 379731000852 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731000853 dimer interface [polypeptide binding]; other site 379731000854 conserved gate region; other site 379731000855 putative PBP binding loops; other site 379731000856 ABC-ATPase subunit interface; other site 379731000857 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 379731000858 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731000859 dimer interface [polypeptide binding]; other site 379731000860 conserved gate region; other site 379731000861 putative PBP binding loops; other site 379731000862 ABC-ATPase subunit interface; other site 379731000863 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 379731000864 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 379731000865 substrate binding pocket [chemical binding]; other site 379731000866 membrane-bound complex binding site; other site 379731000867 hinge residues; other site 379731000868 Uncharacterized small protein [Function unknown]; Region: COG5583 379731000869 Serine hydrolase; Region: Ser_hydrolase; pfam06821 379731000870 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 379731000871 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 379731000872 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 379731000873 dimer interface [polypeptide binding]; other site 379731000874 decamer (pentamer of dimers) interface [polypeptide binding]; other site 379731000875 catalytic triad [active] 379731000876 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 379731000877 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 379731000878 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 379731000879 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 379731000880 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731000881 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731000882 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 379731000883 dimerization interface [polypeptide binding]; other site 379731000884 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 379731000885 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 379731000886 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 379731000887 SurA N-terminal domain; Region: SurA_N; pfam09312 379731000888 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 379731000889 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731000890 Uncharacterized conserved protein [Function unknown]; Region: COG5361 379731000891 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 379731000892 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 379731000893 Integrase core domain; Region: rve; pfam00665 379731000894 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 379731000895 Bacterial TniB protein; Region: TniB; pfam05621 379731000896 TniQ; Region: TniQ; pfam06527 379731000897 multiple promoter invertase; Provisional; Region: mpi; PRK13413 379731000898 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 379731000899 catalytic residues [active] 379731000900 catalytic nucleophile [active] 379731000901 Presynaptic Site I dimer interface [polypeptide binding]; other site 379731000902 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 379731000903 Synaptic Flat tetramer interface [polypeptide binding]; other site 379731000904 Synaptic Site I dimer interface [polypeptide binding]; other site 379731000905 DNA binding site [nucleotide binding] 379731000906 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 379731000907 DNA-binding interface [nucleotide binding]; DNA binding site 379731000908 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 379731000909 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 379731000910 OsmC-like protein; Region: OsmC; pfam02566 379731000911 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 379731000912 active site residue [active] 379731000913 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 379731000914 Predicted permeases [General function prediction only]; Region: COG0701 379731000915 RNA polymerase sigma factor, SigZ family; Region: SigZ; TIGR02959 379731000916 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 379731000917 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 379731000918 Sodium Bile acid symporter family; Region: SBF; cl17470 379731000919 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 379731000920 Low molecular weight phosphatase family; Region: LMWPc; cd00115 379731000921 active site 379731000922 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 379731000923 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 379731000924 P loop; other site 379731000925 Nucleotide binding site [chemical binding]; other site 379731000926 DTAP/Switch II; other site 379731000927 Switch I; other site 379731000928 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 379731000929 DTAP/Switch II; other site 379731000930 Switch I; other site 379731000931 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 379731000932 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 379731000933 active site 379731000934 catalytic residues [active] 379731000935 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 379731000936 Low molecular weight phosphatase family; Region: LMWPc; cd00115 379731000937 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 379731000938 active site 379731000939 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 379731000940 putative DNA binding site [nucleotide binding]; other site 379731000941 putative Zn2+ binding site [ion binding]; other site 379731000942 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 379731000943 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 379731000944 catalytic residues [active] 379731000945 catalytic nucleophile [active] 379731000946 Presynaptic Site I dimer interface [polypeptide binding]; other site 379731000947 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 379731000948 Synaptic Flat tetramer interface [polypeptide binding]; other site 379731000949 Synaptic Site I dimer interface [polypeptide binding]; other site 379731000950 DNA binding site [nucleotide binding] 379731000951 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 379731000952 DNA-binding interface [nucleotide binding]; DNA binding site 379731000953 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731000954 Integrase core domain; Region: rve; pfam00665 379731000955 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731000956 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 379731000957 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 379731000958 Walker A motif; other site 379731000959 ATP binding site [chemical binding]; other site 379731000960 Walker B motif; other site 379731000961 arginine finger; other site 379731000962 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 379731000963 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 379731000964 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 379731000965 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 379731000966 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 379731000967 Divergent AAA domain; Region: AAA_4; pfam04326 379731000968 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 379731000969 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 379731000970 GIY-YIG motif/motif A; other site 379731000971 putative active site [active] 379731000972 putative metal binding site [ion binding]; other site 379731000973 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 379731000974 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 379731000975 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 379731000976 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 379731000977 HsdM N-terminal domain; Region: HsdM_N; pfam12161 379731000978 Methyltransferase domain; Region: Methyltransf_26; pfam13659 379731000979 S-adenosylmethionine binding site [chemical binding]; other site 379731000980 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 379731000981 Helix-turn-helix domain; Region: HTH_38; pfam13936 379731000982 Integrase core domain; Region: rve; pfam00665 379731000983 integrase; Provisional; Region: PRK09692 379731000984 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 379731000985 active site 379731000986 Int/Topo IB signature motif; other site 379731000987 Methyltransferase domain; Region: Methyltransf_32; pfam13679 379731000988 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 379731000989 DctM-like transporters; Region: DctM; pfam06808 379731000990 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 379731000991 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 379731000992 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 379731000993 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 379731000994 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 379731000995 PAS domain S-box; Region: sensory_box; TIGR00229 379731000996 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 379731000997 putative active site [active] 379731000998 heme pocket [chemical binding]; other site 379731000999 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 379731001000 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 379731001001 putative active site [active] 379731001002 heme pocket [chemical binding]; other site 379731001003 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 379731001004 putative active site [active] 379731001005 heme pocket [chemical binding]; other site 379731001006 PAS fold; Region: PAS_3; pfam08447 379731001007 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 379731001008 GAF domain; Region: GAF; pfam01590 379731001009 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 379731001010 PAS domain; Region: PAS_9; pfam13426 379731001011 putative active site [active] 379731001012 heme pocket [chemical binding]; other site 379731001013 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 379731001014 dimer interface [polypeptide binding]; other site 379731001015 phosphorylation site [posttranslational modification] 379731001016 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 379731001017 ATP binding site [chemical binding]; other site 379731001018 Mg2+ binding site [ion binding]; other site 379731001019 G-X-G motif; other site 379731001020 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731001021 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731001022 active site 379731001023 phosphorylation site [posttranslational modification] 379731001024 intermolecular recognition site; other site 379731001025 dimerization interface [polypeptide binding]; other site 379731001026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 379731001027 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 379731001028 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 379731001029 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 379731001030 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 379731001031 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 379731001032 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 379731001033 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 379731001034 Walker A motif; other site 379731001035 ATP binding site [chemical binding]; other site 379731001036 Walker B motif; other site 379731001037 Uncharacterized conserved protein [Function unknown]; Region: COG3025 379731001038 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 379731001039 putative active site [active] 379731001040 putative metal binding residues [ion binding]; other site 379731001041 signature motif; other site 379731001042 putative triphosphate binding site [ion binding]; other site 379731001043 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 379731001044 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 379731001045 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 379731001046 acetylornithine deacetylase; Provisional; Region: PRK05111 379731001047 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 379731001048 metal binding site [ion binding]; metal-binding site 379731001049 putative dimer interface [polypeptide binding]; other site 379731001050 N-acetylglutamate synthase; Validated; Region: PRK05279 379731001051 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 379731001052 putative substrate binding site [chemical binding]; other site 379731001053 putative nucleotide binding site [chemical binding]; other site 379731001054 N-acetylglutamate synthase and related acetyltransferases [Amino acid transport and metabolism]; Region: ArgA; COG1246 379731001055 glutamate--cysteine ligase; Provisional; Region: PRK02107 379731001056 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 379731001057 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 379731001058 CoenzymeA binding site [chemical binding]; other site 379731001059 subunit interaction site [polypeptide binding]; other site 379731001060 PHB binding site; other site 379731001061 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 379731001062 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 379731001063 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 379731001064 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 379731001065 RNA binding site [nucleotide binding]; other site 379731001066 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 379731001067 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 379731001068 binding surface 379731001069 TPR motif; other site 379731001070 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 379731001071 binding surface 379731001072 TPR motif; other site 379731001073 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 379731001074 cellulose synthase regulator protein; Provisional; Region: PRK11114 379731001075 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 379731001076 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 379731001077 DXD motif; other site 379731001078 PilZ domain; Region: PilZ; pfam07238 379731001079 YhjQ protein; Region: YhjQ; pfam06564 379731001080 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 379731001081 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 379731001082 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 379731001083 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 379731001084 osmolarity response regulator; Provisional; Region: ompR; PRK09468 379731001085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731001086 active site 379731001087 phosphorylation site [posttranslational modification] 379731001088 intermolecular recognition site; other site 379731001089 dimerization interface [polypeptide binding]; other site 379731001090 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 379731001091 DNA binding site [nucleotide binding] 379731001092 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 379731001093 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 379731001094 dimerization interface [polypeptide binding]; other site 379731001095 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 379731001096 ATP binding site [chemical binding]; other site 379731001097 Mg2+ binding site [ion binding]; other site 379731001098 G-X-G motif; other site 379731001099 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 379731001100 RimK-like ATP-grasp domain; Region: RimK; pfam08443 379731001101 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 379731001102 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 379731001103 RNA binding surface [nucleotide binding]; other site 379731001104 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 379731001105 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 379731001106 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 379731001107 dimerization interface [polypeptide binding]; other site 379731001108 domain crossover interface; other site 379731001109 redox-dependent activation switch; other site 379731001110 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 379731001111 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 379731001112 active site 379731001113 substrate-binding site [chemical binding]; other site 379731001114 metal-binding site [ion binding] 379731001115 ATP binding site [chemical binding]; other site 379731001116 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 379731001117 dimer interface [polypeptide binding]; other site 379731001118 FMN binding site [chemical binding]; other site 379731001119 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 379731001120 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 379731001121 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 379731001122 ATP binding site [chemical binding]; other site 379731001123 putative Mg++ binding site [ion binding]; other site 379731001124 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 379731001125 nucleotide binding region [chemical binding]; other site 379731001126 ATP-binding site [chemical binding]; other site 379731001127 FIST N domain; Region: FIST; smart00897 379731001128 FIST C domain; Region: FIST_C; pfam10442 379731001129 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731001130 dimer interface [polypeptide binding]; other site 379731001131 putative CheW interface [polypeptide binding]; other site 379731001132 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 379731001133 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 379731001134 dimerization interface [polypeptide binding]; other site 379731001135 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731001136 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731001137 dimer interface [polypeptide binding]; other site 379731001138 putative CheW interface [polypeptide binding]; other site 379731001139 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 379731001140 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 379731001141 active site 379731001142 catalytic tetrad [active] 379731001143 TLC ATP/ADP transporter; Region: TLC; cl03940 379731001144 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 379731001145 30S subunit binding site; other site 379731001146 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 379731001147 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 379731001148 active site 379731001149 catalytic residues [active] 379731001150 Response regulator receiver domain; Region: Response_reg; pfam00072 379731001151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731001152 active site 379731001153 phosphorylation site [posttranslational modification] 379731001154 intermolecular recognition site; other site 379731001155 dimerization interface [polypeptide binding]; other site 379731001156 PAS domain S-box; Region: sensory_box; TIGR00229 379731001157 PAS domain; Region: PAS; smart00091 379731001158 putative active site [active] 379731001159 heme pocket [chemical binding]; other site 379731001160 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 379731001161 ATP binding site [chemical binding]; other site 379731001162 Mg2+ binding site [ion binding]; other site 379731001163 G-X-G motif; other site 379731001164 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731001165 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731001166 active site 379731001167 phosphorylation site [posttranslational modification] 379731001168 intermolecular recognition site; other site 379731001169 dimerization interface [polypeptide binding]; other site 379731001170 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 379731001171 dimer interface [polypeptide binding]; other site 379731001172 phosphorylation site [posttranslational modification] 379731001173 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 379731001174 ATP binding site [chemical binding]; other site 379731001175 Mg2+ binding site [ion binding]; other site 379731001176 G-X-G motif; other site 379731001177 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 379731001178 ATP binding site [chemical binding]; other site 379731001179 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 379731001180 Mg2+ binding site [ion binding]; other site 379731001181 G-X-G motif; other site 379731001182 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 379731001183 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 379731001184 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 379731001185 ATP binding site [chemical binding]; other site 379731001186 Mg2+ binding site [ion binding]; other site 379731001187 G-X-G motif; other site 379731001188 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 379731001189 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 379731001190 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731001191 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731001192 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold; Region: PBP2_Pa0477; cd08468 379731001193 putative substrate binding pocket [chemical binding]; other site 379731001194 dimerization interface [polypeptide binding]; other site 379731001195 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 379731001196 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 379731001197 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 379731001198 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 379731001199 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 379731001200 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 379731001201 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 379731001202 active site 379731001203 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 379731001204 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 379731001205 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 379731001206 putative active site [active] 379731001207 metal binding site [ion binding]; metal-binding site 379731001208 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 379731001209 active site 379731001210 Uncharacterized protein required for formate dehydrogenase activity [Energy production and conversion]; Region: FdhD; COG1526 379731001211 PAS fold; Region: PAS_3; pfam08447 379731001212 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 379731001213 heme pocket [chemical binding]; other site 379731001214 putative active site [active] 379731001215 PAS fold; Region: PAS_4; pfam08448 379731001216 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 379731001217 putative active site [active] 379731001218 heme pocket [chemical binding]; other site 379731001219 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 379731001220 dimer interface [polypeptide binding]; other site 379731001221 phosphorylation site [posttranslational modification] 379731001222 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 379731001223 ATP binding site [chemical binding]; other site 379731001224 Mg2+ binding site [ion binding]; other site 379731001225 G-X-G motif; other site 379731001226 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731001227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731001228 active site 379731001229 phosphorylation site [posttranslational modification] 379731001230 intermolecular recognition site; other site 379731001231 dimerization interface [polypeptide binding]; other site 379731001232 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 379731001233 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 379731001234 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 379731001235 motif II; other site 379731001236 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 379731001237 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 379731001238 dimer interface [polypeptide binding]; other site 379731001239 ADP-ribose binding site [chemical binding]; other site 379731001240 active site 379731001241 nudix motif; other site 379731001242 metal binding site [ion binding]; metal-binding site 379731001243 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 379731001244 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 379731001245 active site 379731001246 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 379731001247 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 379731001248 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 379731001249 homodimer interface [polypeptide binding]; other site 379731001250 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 379731001251 active site pocket [active] 379731001252 fructose-1,6-bisphosphatase family protein; Region: PLN02628 379731001253 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 379731001254 AMP binding site [chemical binding]; other site 379731001255 metal binding site [ion binding]; metal-binding site 379731001256 active site 379731001257 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 379731001258 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 379731001259 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 379731001260 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 379731001261 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 379731001262 TAP-like protein; Region: Abhydrolase_4; pfam08386 379731001263 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 379731001264 putative active site [active] 379731001265 dimerization interface [polypeptide binding]; other site 379731001266 putative tRNAtyr binding site [nucleotide binding]; other site 379731001267 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 379731001268 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 379731001269 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 379731001270 sec-independent translocase; Provisional; Region: tatB; PRK00404 379731001271 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 379731001272 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 379731001273 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 379731001274 metal binding site [ion binding]; metal-binding site 379731001275 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 379731001276 ABC1 family; Region: ABC1; cl17513 379731001277 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 379731001278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 379731001279 SCP-2 sterol transfer family; Region: SCP2; pfam02036 379731001280 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 379731001281 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 379731001282 S-adenosylmethionine binding site [chemical binding]; other site 379731001283 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 379731001284 dimerization interface [polypeptide binding]; other site 379731001285 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731001286 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731001287 dimer interface [polypeptide binding]; other site 379731001288 putative CheW interface [polypeptide binding]; other site 379731001289 Protein of unknown function (DUF971); Region: DUF971; pfam06155 379731001290 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 379731001291 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 379731001292 Walker A motif; other site 379731001293 ATP binding site [chemical binding]; other site 379731001294 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 379731001295 Walker B motif; other site 379731001296 arginine finger; other site 379731001297 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 379731001298 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 379731001299 active site 379731001300 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 379731001301 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 379731001302 putative molybdopterin cofactor binding site [chemical binding]; other site 379731001303 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 379731001304 putative molybdopterin cofactor binding site; other site 379731001305 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 379731001306 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 379731001307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731001308 active site 379731001309 phosphorylation site [posttranslational modification] 379731001310 intermolecular recognition site; other site 379731001311 dimerization interface [polypeptide binding]; other site 379731001312 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 379731001313 Walker A motif; other site 379731001314 ATP binding site [chemical binding]; other site 379731001315 Walker B motif; other site 379731001316 arginine finger; other site 379731001317 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 379731001318 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 379731001319 PAS domain; Region: PAS; smart00091 379731001320 putative active site [active] 379731001321 heme pocket [chemical binding]; other site 379731001322 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 379731001323 dimer interface [polypeptide binding]; other site 379731001324 phosphorylation site [posttranslational modification] 379731001325 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 379731001326 ATP binding site [chemical binding]; other site 379731001327 Mg2+ binding site [ion binding]; other site 379731001328 G-X-G motif; other site 379731001329 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 379731001330 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 379731001331 glutamine synthetase; Provisional; Region: glnA; PRK09469 379731001332 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 379731001333 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 379731001334 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 379731001335 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 379731001336 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 379731001337 Ligand Binding Site [chemical binding]; other site 379731001338 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 379731001339 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 379731001340 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 379731001341 G1 box; other site 379731001342 putative GEF interaction site [polypeptide binding]; other site 379731001343 GTP/Mg2+ binding site [chemical binding]; other site 379731001344 Switch I region; other site 379731001345 G2 box; other site 379731001346 G3 box; other site 379731001347 Switch II region; other site 379731001348 G4 box; other site 379731001349 G5 box; other site 379731001350 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 379731001351 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 379731001352 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731001353 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731001354 dimer interface [polypeptide binding]; other site 379731001355 putative CheW interface [polypeptide binding]; other site 379731001356 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 379731001357 sensory histidine kinase DcuS; Provisional; Region: PRK11086 379731001358 PAS domain; Region: PAS; smart00091 379731001359 putative active site [active] 379731001360 heme pocket [chemical binding]; other site 379731001361 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 379731001362 ATP binding site [chemical binding]; other site 379731001363 Mg2+ binding site [ion binding]; other site 379731001364 G-X-G motif; other site 379731001365 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 379731001366 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731001367 active site 379731001368 phosphorylation site [posttranslational modification] 379731001369 intermolecular recognition site; other site 379731001370 dimerization interface [polypeptide binding]; other site 379731001371 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 379731001372 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 379731001373 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 379731001374 dimerization interface [polypeptide binding]; other site 379731001375 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731001376 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 379731001377 phosphorylation site [posttranslational modification] 379731001378 dimer interface [polypeptide binding]; other site 379731001379 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 379731001380 ATP binding site [chemical binding]; other site 379731001381 Mg2+ binding site [ion binding]; other site 379731001382 G-X-G motif; other site 379731001383 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 379731001384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731001385 active site 379731001386 phosphorylation site [posttranslational modification] 379731001387 intermolecular recognition site; other site 379731001388 dimerization interface [polypeptide binding]; other site 379731001389 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 379731001390 Walker A motif; other site 379731001391 ATP binding site [chemical binding]; other site 379731001392 Walker B motif; other site 379731001393 arginine finger; other site 379731001394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 379731001395 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 379731001396 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 379731001397 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 379731001398 Cytochrome c; Region: Cytochrom_C; cl11414 379731001399 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 379731001400 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731001401 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731001402 metal binding site [ion binding]; metal-binding site 379731001403 active site 379731001404 I-site; other site 379731001405 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 379731001406 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 379731001407 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 379731001408 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 379731001409 active site 379731001410 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 379731001411 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 379731001412 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 379731001413 DTAP/Switch II; other site 379731001414 Switch I; other site 379731001415 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 379731001416 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 379731001417 Carbon starvation protein CstA; Region: CstA; pfam02554 379731001418 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 379731001419 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 379731001420 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 379731001421 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 379731001422 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 379731001423 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 379731001424 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 379731001425 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 379731001426 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 379731001427 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 379731001428 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731001429 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731001430 dimer interface [polypeptide binding]; other site 379731001431 putative CheW interface [polypeptide binding]; other site 379731001432 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 379731001433 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 379731001434 dimer interface [polypeptide binding]; other site 379731001435 phosphorylation site [posttranslational modification] 379731001436 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 379731001437 ATP binding site [chemical binding]; other site 379731001438 Mg2+ binding site [ion binding]; other site 379731001439 G-X-G motif; other site 379731001440 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 379731001441 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731001442 active site 379731001443 phosphorylation site [posttranslational modification] 379731001444 intermolecular recognition site; other site 379731001445 dimerization interface [polypeptide binding]; other site 379731001446 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 379731001447 DNA binding site [nucleotide binding] 379731001448 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 379731001449 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 379731001450 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 379731001451 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 379731001452 Curlin associated repeat; Region: Curlin_rpt; pfam07012 379731001453 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 379731001454 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 379731001455 DNA binding residues [nucleotide binding] 379731001456 dimerization interface [polypeptide binding]; other site 379731001457 OPT oligopeptide transporter protein; Region: OPT; cl14607 379731001458 OPT oligopeptide transporter protein; Region: OPT; cl14607 379731001459 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 379731001460 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 379731001461 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 379731001462 ligand binding site [chemical binding]; other site 379731001463 NAD binding site [chemical binding]; other site 379731001464 tetramer interface [polypeptide binding]; other site 379731001465 catalytic site [active] 379731001466 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 379731001467 L-serine binding site [chemical binding]; other site 379731001468 ACT domain interface; other site 379731001469 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 379731001470 FAD binding domain; Region: FAD_binding_4; pfam01565 379731001471 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 379731001472 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 379731001473 SdiA-regulated; Region: SdiA-regulated; pfam06977 379731001474 SdiA-regulated; Region: SdiA-regulated; cd09971 379731001475 putative active site [active] 379731001476 SdiA-regulated; Region: SdiA-regulated; pfam06977 379731001477 SdiA-regulated; Region: SdiA-regulated; cd09971 379731001478 putative active site [active] 379731001479 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 379731001480 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 379731001481 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 379731001482 tetramer (dimer of dimers) interface [polypeptide binding]; other site 379731001483 active site 379731001484 dimer interface [polypeptide binding]; other site 379731001485 threonine dehydratase; Reviewed; Region: PRK09224 379731001486 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 379731001487 tetramer interface [polypeptide binding]; other site 379731001488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731001489 catalytic residue [active] 379731001490 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 379731001491 putative Ile/Val binding site [chemical binding]; other site 379731001492 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 379731001493 putative Ile/Val binding site [chemical binding]; other site 379731001494 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 379731001495 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731001496 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 379731001497 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 379731001498 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 379731001499 putative active site [active] 379731001500 Ap4A binding site [chemical binding]; other site 379731001501 nudix motif; other site 379731001502 putative metal binding site [ion binding]; other site 379731001503 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 379731001504 GAF domain; Region: GAF; pfam01590 379731001505 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 379731001506 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 379731001507 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 379731001508 NRDE protein; Region: NRDE; cl01315 379731001509 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 379731001510 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 379731001511 thymidylate synthase; Reviewed; Region: thyA; PRK01827 379731001512 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 379731001513 dimerization interface [polypeptide binding]; other site 379731001514 active site 379731001515 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 379731001516 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 379731001517 P-loop; other site 379731001518 Magnesium ion binding site [ion binding]; other site 379731001519 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 379731001520 Magnesium ion binding site [ion binding]; other site 379731001521 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 379731001522 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 379731001523 TM-ABC transporter signature motif; other site 379731001524 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 379731001525 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 379731001526 TM-ABC transporter signature motif; other site 379731001527 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 379731001528 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 379731001529 Walker A/P-loop; other site 379731001530 ATP binding site [chemical binding]; other site 379731001531 Q-loop/lid; other site 379731001532 ABC transporter signature motif; other site 379731001533 Walker B; other site 379731001534 D-loop; other site 379731001535 H-loop/switch region; other site 379731001536 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 379731001537 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 379731001538 Walker A/P-loop; other site 379731001539 ATP binding site [chemical binding]; other site 379731001540 Q-loop/lid; other site 379731001541 ABC transporter signature motif; other site 379731001542 Walker B; other site 379731001543 D-loop; other site 379731001544 H-loop/switch region; other site 379731001545 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 379731001546 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 379731001547 putative ligand binding site [chemical binding]; other site 379731001548 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 379731001549 Ligand Binding Site [chemical binding]; other site 379731001550 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 379731001551 Ligand Binding Site [chemical binding]; other site 379731001552 Response regulator receiver domain; Region: Response_reg; pfam00072 379731001553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731001554 active site 379731001555 phosphorylation site [posttranslational modification] 379731001556 intermolecular recognition site; other site 379731001557 dimerization interface [polypeptide binding]; other site 379731001558 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 379731001559 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 379731001560 Peptidase family M23; Region: Peptidase_M23; pfam01551 379731001561 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 379731001562 Domain of unknown function DUF21; Region: DUF21; pfam01595 379731001563 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 379731001564 Transporter associated domain; Region: CorC_HlyC; smart01091 379731001565 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 379731001566 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 379731001567 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 379731001568 putative active site [active] 379731001569 heme pocket [chemical binding]; other site 379731001570 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 379731001571 dimer interface [polypeptide binding]; other site 379731001572 phosphorylation site [posttranslational modification] 379731001573 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 379731001574 ATP binding site [chemical binding]; other site 379731001575 Mg2+ binding site [ion binding]; other site 379731001576 G-X-G motif; other site 379731001577 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 379731001578 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731001579 active site 379731001580 phosphorylation site [posttranslational modification] 379731001581 intermolecular recognition site; other site 379731001582 dimerization interface [polypeptide binding]; other site 379731001583 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 379731001584 DNA binding site [nucleotide binding] 379731001585 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 379731001586 UbiA prenyltransferase family; Region: UbiA; pfam01040 379731001587 Chorismate lyase; Region: Chor_lyase; cl01230 379731001588 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 379731001589 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 379731001590 DNA-binding site [nucleotide binding]; DNA binding site 379731001591 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 379731001592 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 379731001593 FAD binding domain; Region: FAD_binding_4; pfam01565 379731001594 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 379731001595 FAD binding domain; Region: FAD_binding_4; pfam01565 379731001596 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 379731001597 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 379731001598 Cysteine-rich domain; Region: CCG; pfam02754 379731001599 Cysteine-rich domain; Region: CCG; pfam02754 379731001600 Domain of unknown function (DUF336); Region: DUF336; cl01249 379731001601 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 379731001602 active site 379731001603 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 379731001604 L-lactate permease; Region: Lactate_perm; cl00701 379731001605 Rubredoxin [Energy production and conversion]; Region: COG1773 379731001606 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 379731001607 iron binding site [ion binding]; other site 379731001608 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 379731001609 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 379731001610 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 379731001611 IHF dimer interface [polypeptide binding]; other site 379731001612 IHF - DNA interface [nucleotide binding]; other site 379731001613 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 379731001614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731001615 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 379731001616 dimerization interface [polypeptide binding]; other site 379731001617 substrate binding pocket [chemical binding]; other site 379731001618 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 379731001619 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 379731001620 FAD binding site [chemical binding]; other site 379731001621 substrate binding pocket [chemical binding]; other site 379731001622 catalytic base [active] 379731001623 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 379731001624 CoA-transferase family III; Region: CoA_transf_3; pfam02515 379731001625 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 379731001626 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 379731001627 putative NAD(P) binding site [chemical binding]; other site 379731001628 dimer interface [polypeptide binding]; other site 379731001629 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 379731001630 putative effector binding pocket; other site 379731001631 dimerization interface [polypeptide binding]; other site 379731001632 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 379731001633 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 379731001634 Repair protein; Region: Repair_PSII; pfam04536 379731001635 Repair protein; Region: Repair_PSII; cl01535 379731001636 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 379731001637 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 379731001638 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 379731001639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731001640 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 379731001641 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 379731001642 Walker A motif; other site 379731001643 ATP binding site [chemical binding]; other site 379731001644 Walker B motif; other site 379731001645 arginine finger; other site 379731001646 Peptidase family M41; Region: Peptidase_M41; pfam01434 379731001647 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 379731001648 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 379731001649 substrate binding pocket [chemical binding]; other site 379731001650 membrane-bound complex binding site; other site 379731001651 hinge residues; other site 379731001652 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 379731001653 Cytochrome c; Region: Cytochrom_C; pfam00034 379731001654 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 379731001655 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 379731001656 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 379731001657 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 379731001658 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 379731001659 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 379731001660 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 379731001661 catalytic loop [active] 379731001662 iron binding site [ion binding]; other site 379731001663 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 379731001664 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 379731001665 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731001666 ligand binding site [chemical binding]; other site 379731001667 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 379731001668 homotrimer interaction site [polypeptide binding]; other site 379731001669 putative active site [active] 379731001670 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 379731001671 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 379731001672 Zn2+ binding site [ion binding]; other site 379731001673 Mg2+ binding site [ion binding]; other site 379731001674 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 379731001675 synthetase active site [active] 379731001676 NTP binding site [chemical binding]; other site 379731001677 metal binding site [ion binding]; metal-binding site 379731001678 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 379731001679 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 379731001680 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 379731001681 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 379731001682 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 379731001683 catalytic site [active] 379731001684 G-X2-G-X-G-K; other site 379731001685 hypothetical protein; Provisional; Region: PRK11820 379731001686 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 379731001687 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 379731001688 ribonuclease PH; Reviewed; Region: rph; PRK00173 379731001689 Ribonuclease PH; Region: RNase_PH_bact; cd11362 379731001690 hexamer interface [polypeptide binding]; other site 379731001691 active site 379731001692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 379731001693 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 379731001694 putative active site [active] 379731001695 putative catalytic site [active] 379731001696 putative DNA binding site [nucleotide binding]; other site 379731001697 putative phosphate binding site [ion binding]; other site 379731001698 metal binding site A [ion binding]; metal-binding site 379731001699 putative AP binding site [nucleotide binding]; other site 379731001700 putative metal binding site B [ion binding]; other site 379731001701 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 379731001702 active site 379731001703 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 379731001704 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 379731001705 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 379731001706 feedback inhibition sensing region; other site 379731001707 homohexameric interface [polypeptide binding]; other site 379731001708 nucleotide binding site [chemical binding]; other site 379731001709 N-acetyl-L-glutamate binding site [chemical binding]; other site 379731001710 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 379731001711 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 379731001712 active site 379731001713 substrate binding site [chemical binding]; other site 379731001714 metal binding site [ion binding]; metal-binding site 379731001715 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 379731001716 trimer interface [polypeptide binding]; other site 379731001717 active site 379731001718 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 379731001719 Flavoprotein; Region: Flavoprotein; pfam02441 379731001720 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 379731001721 hypothetical protein; Reviewed; Region: PRK00024 379731001722 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 379731001723 MPN+ (JAMM) motif; other site 379731001724 Zinc-binding site [ion binding]; other site 379731001725 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 379731001726 CoenzymeA binding site [chemical binding]; other site 379731001727 subunit interaction site [polypeptide binding]; other site 379731001728 PHB binding site; other site 379731001729 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 379731001730 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 379731001731 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 379731001732 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 379731001733 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731001734 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731001735 dimer interface [polypeptide binding]; other site 379731001736 putative CheW interface [polypeptide binding]; other site 379731001737 Protein of unknown function (DUF962); Region: DUF962; cl01879 379731001738 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 379731001739 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 379731001740 putative active site [active] 379731001741 catalytic site [active] 379731001742 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 379731001743 putative active site [active] 379731001744 catalytic site [active] 379731001745 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 379731001746 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 379731001747 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 379731001748 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 379731001749 putative DNA binding site [nucleotide binding]; other site 379731001750 putative Zn2+ binding site [ion binding]; other site 379731001751 AsnC family; Region: AsnC_trans_reg; pfam01037 379731001752 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 379731001753 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 379731001754 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 379731001755 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 379731001756 non-specific DNA binding site [nucleotide binding]; other site 379731001757 salt bridge; other site 379731001758 sequence-specific DNA binding site [nucleotide binding]; other site 379731001759 Cupin domain; Region: Cupin_2; pfam07883 379731001760 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 379731001761 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 379731001762 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 379731001763 active site 379731001764 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 379731001765 trehalose synthase; Region: treS_nterm; TIGR02456 379731001766 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 379731001767 active site 379731001768 catalytic site [active] 379731001769 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu_like; cd11331 379731001770 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 379731001771 active site 379731001772 catalytic site [active] 379731001773 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 379731001774 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 379731001775 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 379731001776 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 379731001777 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 379731001778 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 379731001779 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 379731001780 putative active site [active] 379731001781 metal binding site [ion binding]; metal-binding site 379731001782 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 379731001783 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 379731001784 tetrameric interface [polypeptide binding]; other site 379731001785 NAD binding site [chemical binding]; other site 379731001786 catalytic residues [active] 379731001787 Transcriptional regulator [Transcription]; Region: IclR; COG1414 379731001788 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 379731001789 Bacterial transcriptional regulator; Region: IclR; pfam01614 379731001790 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 379731001791 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 379731001792 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 379731001793 Part of AAA domain; Region: AAA_19; pfam13245 379731001794 Family description; Region: UvrD_C_2; pfam13538 379731001795 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731001796 metal binding site [ion binding]; metal-binding site 379731001797 active site 379731001798 I-site; other site 379731001799 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 379731001800 BCCT family transporter; Region: BCCT; cl00569 379731001801 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 379731001802 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 379731001803 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 379731001804 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 379731001805 Walker A motif; other site 379731001806 ATP binding site [chemical binding]; other site 379731001807 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 379731001808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 379731001809 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 379731001810 Nitrogen regulatory protein P-II; Region: P-II; smart00938 379731001811 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 379731001812 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 379731001813 Uncharacterized conserved protein [Function unknown]; Region: COG0432 379731001814 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 379731001815 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 379731001816 motif II; other site 379731001817 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 379731001818 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 379731001819 active site 379731001820 DNA binding site [nucleotide binding] 379731001821 Int/Topo IB signature motif; other site 379731001822 Protein of unknown function, DUF484; Region: DUF484; pfam04340 379731001823 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 379731001824 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 379731001825 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 379731001826 diaminopimelate decarboxylase; Region: lysA; TIGR01048 379731001827 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 379731001828 active site 379731001829 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 379731001830 substrate binding site [chemical binding]; other site 379731001831 catalytic residues [active] 379731001832 dimer interface [polypeptide binding]; other site 379731001833 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 379731001834 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 379731001835 putative iron binding site [ion binding]; other site 379731001836 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 379731001837 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 379731001838 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 379731001839 adenylate cyclase; Provisional; Region: cyaA; PRK09450 379731001840 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 379731001841 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 379731001842 TIGR02647 family protein; Region: DNA 379731001843 NnrS protein; Region: NnrS; pfam05940 379731001844 argininosuccinate lyase; Provisional; Region: PRK00855 379731001845 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 379731001846 active sites [active] 379731001847 tetramer interface [polypeptide binding]; other site 379731001848 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 379731001849 Histidine kinase; Region: His_kinase; pfam06580 379731001850 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 379731001851 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731001852 active site 379731001853 phosphorylation site [posttranslational modification] 379731001854 intermolecular recognition site; other site 379731001855 dimerization interface [polypeptide binding]; other site 379731001856 LytTr DNA-binding domain; Region: LytTR; pfam04397 379731001857 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 379731001858 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 379731001859 domain interfaces; other site 379731001860 active site 379731001861 uroporphyrinogen-III synthase; Validated; Region: PRK05752 379731001862 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 379731001863 active site 379731001864 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 379731001865 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 379731001866 HemY protein N-terminus; Region: HemY_N; pfam07219 379731001867 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 379731001868 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 379731001869 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 379731001870 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 379731001871 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 379731001872 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 379731001873 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 379731001874 ABC transporter; Region: ABC_tran_2; pfam12848 379731001875 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 379731001876 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 379731001877 Mechanosensitive ion channel; Region: MS_channel; pfam00924 379731001878 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 379731001879 LysE type translocator; Region: LysE; cl00565 379731001880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 379731001881 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 379731001882 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 379731001883 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 379731001884 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731001885 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731001886 metal binding site [ion binding]; metal-binding site 379731001887 active site 379731001888 I-site; other site 379731001889 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 379731001890 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 379731001891 CoenzymeA binding site [chemical binding]; other site 379731001892 subunit interaction site [polypeptide binding]; other site 379731001893 PHB binding site; other site 379731001894 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 379731001895 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 379731001896 conserved cys residue [active] 379731001897 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 379731001898 dimer interface [polypeptide binding]; other site 379731001899 allosteric magnesium binding site [ion binding]; other site 379731001900 active site 379731001901 aspartate-rich active site metal binding site; other site 379731001902 Schiff base residues; other site 379731001903 polyphosphate kinase; Provisional; Region: PRK05443 379731001904 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 379731001905 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 379731001906 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 379731001907 putative active site [active] 379731001908 catalytic site [active] 379731001909 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 379731001910 putative domain interface [polypeptide binding]; other site 379731001911 putative active site [active] 379731001912 catalytic site [active] 379731001913 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 379731001914 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 379731001915 transcription termination factor Rho; Provisional; Region: rho; PRK09376 379731001916 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 379731001917 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 379731001918 RNA binding site [nucleotide binding]; other site 379731001919 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 379731001920 multimer interface [polypeptide binding]; other site 379731001921 Walker A motif; other site 379731001922 ATP binding site [chemical binding]; other site 379731001923 Walker B motif; other site 379731001924 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 379731001925 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 379731001926 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 379731001927 catalytic loop [active] 379731001928 iron binding site [ion binding]; other site 379731001929 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 379731001930 FAD binding pocket [chemical binding]; other site 379731001931 FAD binding motif [chemical binding]; other site 379731001932 phosphate binding motif [ion binding]; other site 379731001933 beta-alpha-beta structure motif; other site 379731001934 NAD binding pocket [chemical binding]; other site 379731001935 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 379731001936 Sporulation related domain; Region: SPOR; pfam05036 379731001937 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 379731001938 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 379731001939 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 379731001940 active site 379731001941 HIGH motif; other site 379731001942 KMSK motif region; other site 379731001943 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 379731001944 tRNA binding surface [nucleotide binding]; other site 379731001945 anticodon binding site; other site 379731001946 primosome assembly protein PriA; Validated; Region: PRK05580 379731001947 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 379731001948 ATP binding site [chemical binding]; other site 379731001949 putative Mg++ binding site [ion binding]; other site 379731001950 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 379731001951 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 379731001952 ATP-binding site [chemical binding]; other site 379731001953 Staphylococcal nuclease homologues; Region: SNc; smart00318 379731001954 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 379731001955 Catalytic site; other site 379731001956 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 379731001957 Malic enzyme, N-terminal domain; Region: malic; pfam00390 379731001958 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 379731001959 putative NAD(P) binding site [chemical binding]; other site 379731001960 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 379731001961 Transglycosylase; Region: Transgly; pfam00912 379731001962 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 379731001963 Homeodomain-like domain; Region: HTH_23; pfam13384 379731001964 Winged helix-turn helix; Region: HTH_29; pfam13551 379731001965 Winged helix-turn helix; Region: HTH_33; pfam13592 379731001966 DDE superfamily endonuclease; Region: DDE_3; pfam13358 379731001967 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 379731001968 Competence protein A; Region: Competence_A; pfam11104 379731001969 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 379731001970 nucleotide binding site [chemical binding]; other site 379731001971 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 379731001972 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 379731001973 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 379731001974 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 379731001975 Pilus assembly protein, PilP; Region: PilP; pfam04351 379731001976 AMIN domain; Region: AMIN; pfam11741 379731001977 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 379731001978 Secretin and TonB N terminus short domain; Region: STN; smart00965 379731001979 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 379731001980 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 379731001981 shikimate kinase; Reviewed; Region: aroK; PRK00131 379731001982 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 379731001983 magnesium binding site [ion binding]; other site 379731001984 putative shikimate binding site; other site 379731001985 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 379731001986 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 379731001987 active site 379731001988 dimer interface [polypeptide binding]; other site 379731001989 metal binding site [ion binding]; metal-binding site 379731001990 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 379731001991 Sporulation related domain; Region: SPOR; pfam05036 379731001992 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 379731001993 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 379731001994 active site 379731001995 dimer interface [polypeptide binding]; other site 379731001996 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 379731001997 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 379731001998 active site 379731001999 FMN binding site [chemical binding]; other site 379731002000 substrate binding site [chemical binding]; other site 379731002001 3Fe-4S cluster binding site [ion binding]; other site 379731002002 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 379731002003 domain interface; other site 379731002004 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 379731002005 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 379731002006 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 379731002007 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 379731002008 substrate binding site [chemical binding]; other site 379731002009 active site 379731002010 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731002011 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731002012 putative substrate translocation pore; other site 379731002013 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 379731002014 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731002015 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 379731002016 dimerization interface [polypeptide binding]; other site 379731002017 substrate binding pocket [chemical binding]; other site 379731002018 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 379731002019 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 379731002020 catalytic residues [active] 379731002021 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 379731002022 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 379731002023 homodimer interface [polypeptide binding]; other site 379731002024 substrate-cofactor binding pocket; other site 379731002025 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731002026 catalytic residue [active] 379731002027 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 379731002028 transmembrane helices; other site 379731002029 TrkA-C domain; Region: TrkA_C; pfam02080 379731002030 TrkA-C domain; Region: TrkA_C; pfam02080 379731002031 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 379731002032 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 379731002033 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 379731002034 active site 379731002035 DNA binding site [nucleotide binding] 379731002036 Int/Topo IB signature motif; other site 379731002037 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 379731002038 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 379731002039 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 379731002040 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 379731002041 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 379731002042 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 379731002043 Sodium Bile acid symporter family; Region: SBF; cl17470 379731002044 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 379731002045 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 379731002046 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 379731002047 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 379731002048 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731002049 Integrase core domain; Region: rve; pfam00665 379731002050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731002051 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 379731002052 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 379731002053 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 379731002054 Walker A motif; other site 379731002055 ATP binding site [chemical binding]; other site 379731002056 Walker B motif; other site 379731002057 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 379731002058 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 379731002059 ATP binding site [chemical binding]; other site 379731002060 putative Mg++ binding site [ion binding]; other site 379731002061 nucleotide binding region [chemical binding]; other site 379731002062 helicase superfamily c-terminal domain; Region: HELICc; smart00490 379731002063 Helicase associated domain (HA2); Region: HA2; pfam04408 379731002064 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 379731002065 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 379731002066 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 379731002067 ATP binding site [chemical binding]; other site 379731002068 putative Mg++ binding site [ion binding]; other site 379731002069 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 379731002070 nucleotide binding region [chemical binding]; other site 379731002071 ATP-binding site [chemical binding]; other site 379731002072 Helicase associated domain (HA2); Region: HA2; pfam04408 379731002073 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 379731002074 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 379731002075 active site 379731002076 catalytic residues [active] 379731002077 DNA binding site [nucleotide binding] 379731002078 Int/Topo IB signature motif; other site 379731002079 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 379731002080 WYL domain; Region: WYL; pfam13280 379731002081 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 379731002082 active site 379731002083 NTP binding site [chemical binding]; other site 379731002084 metal binding triad [ion binding]; metal-binding site 379731002085 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 379731002086 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 379731002087 Walker A motif; other site 379731002088 ATP binding site [chemical binding]; other site 379731002089 Walker B motif; other site 379731002090 arginine finger; other site 379731002091 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 379731002092 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 379731002093 active site 379731002094 catalytic site [active] 379731002095 substrate binding site [chemical binding]; other site 379731002096 transposase/IS protein; Provisional; Region: PRK09183 379731002097 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 379731002098 Walker A motif; other site 379731002099 ATP binding site [chemical binding]; other site 379731002100 Walker B motif; other site 379731002101 arginine finger; other site 379731002102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731002103 Integrase core domain; Region: rve; pfam00665 379731002104 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 379731002105 active site 379731002106 DNA binding site [nucleotide binding] 379731002107 Int/Topo IB signature motif; other site 379731002108 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 379731002109 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 379731002110 active site 379731002111 DNA binding site [nucleotide binding] 379731002112 Int/Topo IB signature motif; other site 379731002113 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 379731002114 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 379731002115 acyl-activating enzyme (AAE) consensus motif; other site 379731002116 putative AMP binding site [chemical binding]; other site 379731002117 putative active site [active] 379731002118 putative CoA binding site [chemical binding]; other site 379731002119 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 379731002120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731002121 NAD(P) binding site [chemical binding]; other site 379731002122 active site 379731002123 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 379731002124 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 379731002125 active site 379731002126 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 379731002127 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 379731002128 active site 379731002129 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 379731002130 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 379731002131 substrate binding site [chemical binding]; other site 379731002132 oxyanion hole (OAH) forming residues; other site 379731002133 trimer interface [polypeptide binding]; other site 379731002134 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 379731002135 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 379731002136 NAD(P) binding site [chemical binding]; other site 379731002137 catalytic residues [active] 379731002138 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 379731002139 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 379731002140 CoA-transferase family III; Region: CoA_transf_3; pfam02515 379731002141 choline dehydrogenase; Validated; Region: PRK02106 379731002142 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 379731002143 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 379731002144 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 379731002145 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731002146 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 379731002147 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 379731002148 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 379731002149 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 379731002150 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 379731002151 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 379731002152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 379731002153 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731002154 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 379731002155 active site 379731002156 catalytic site [active] 379731002157 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 379731002158 active site 379731002159 catalytic site [active] 379731002160 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 379731002161 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 379731002162 acyl-activating enzyme (AAE) consensus motif; other site 379731002163 putative AMP binding site [chemical binding]; other site 379731002164 putative active site [active] 379731002165 putative CoA binding site [chemical binding]; other site 379731002166 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 379731002167 non-specific DNA binding site [nucleotide binding]; other site 379731002168 salt bridge; other site 379731002169 sequence-specific DNA binding site [nucleotide binding]; other site 379731002170 HipA N-terminal domain; Region: Couple_hipA; pfam13657 379731002171 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 379731002172 HipA-like N-terminal domain; Region: HipA_N; pfam07805 379731002173 HipA-like C-terminal domain; Region: HipA_C; pfam07804 379731002174 DEAD-like helicases superfamily; Region: DEXDc; smart00487 379731002175 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 379731002176 ATP binding site [chemical binding]; other site 379731002177 putative Mg++ binding site [ion binding]; other site 379731002178 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 379731002179 nucleotide binding region [chemical binding]; other site 379731002180 ATP-binding site [chemical binding]; other site 379731002181 Nuclease-related domain; Region: NERD; pfam08378 379731002182 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 379731002183 F-box-like; Region: F-box-like; cl02535 379731002184 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 379731002185 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 379731002186 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 379731002187 HsdM N-terminal domain; Region: HsdM_N; pfam12161 379731002188 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 379731002189 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 379731002190 S-adenosylmethionine binding site [chemical binding]; other site 379731002191 Abi-like protein; Region: Abi_2; pfam07751 379731002192 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 379731002193 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 379731002194 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 379731002195 ATP binding site [chemical binding]; other site 379731002196 putative Mg++ binding site [ion binding]; other site 379731002197 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 379731002198 nucleotide binding region [chemical binding]; other site 379731002199 ATP-binding site [chemical binding]; other site 379731002200 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 379731002201 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731002202 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 379731002203 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731002204 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 379731002205 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 379731002206 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 379731002207 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 379731002208 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 379731002209 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 379731002210 AAA domain; Region: AAA_21; pfam13304 379731002211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731002212 ABC transporter signature motif; other site 379731002213 Walker B; other site 379731002214 D-loop; other site 379731002215 H-loop/switch region; other site 379731002216 HNH endonuclease; Region: HNH; pfam01844 379731002217 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731002218 Integrase core domain; Region: rve; pfam00665 379731002219 transposase/IS protein; Provisional; Region: PRK09183 379731002220 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 379731002221 Walker A motif; other site 379731002222 ATP binding site [chemical binding]; other site 379731002223 Walker B motif; other site 379731002224 arginine finger; other site 379731002225 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 379731002226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731002227 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 379731002228 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 379731002229 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 379731002230 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731002231 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 379731002232 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 379731002233 HsdM N-terminal domain; Region: HsdM_N; pfam12161 379731002234 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 379731002235 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 379731002236 S-adenosylmethionine binding site [chemical binding]; other site 379731002237 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 379731002238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731002239 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 379731002240 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 379731002241 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 379731002242 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731002243 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 379731002244 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 379731002245 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 379731002246 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 379731002247 non-specific DNA binding site [nucleotide binding]; other site 379731002248 salt bridge; other site 379731002249 sequence-specific DNA binding site [nucleotide binding]; other site 379731002250 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731002251 Integrase core domain; Region: rve; pfam00665 379731002252 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731002253 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 379731002254 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 379731002255 Walker A motif; other site 379731002256 ATP binding site [chemical binding]; other site 379731002257 Walker B motif; other site 379731002258 arginine finger; other site 379731002259 Transposase domain (DUF772); Region: DUF772; pfam05598 379731002260 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 379731002261 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 379731002262 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 379731002263 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 379731002264 putative active site [active] 379731002265 putative NTP binding site [chemical binding]; other site 379731002266 putative nucleic acid binding site [nucleotide binding]; other site 379731002267 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 379731002268 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 379731002269 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 379731002270 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 379731002271 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 379731002272 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 379731002273 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 379731002274 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 379731002275 DNA binding residues [nucleotide binding] 379731002276 dimer interface [polypeptide binding]; other site 379731002277 putative metal binding site [ion binding]; other site 379731002278 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 379731002279 Heavy-metal-associated domain; Region: HMA; pfam00403 379731002280 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 379731002281 Soluble P-type ATPase [General function prediction only]; Region: COG4087 379731002282 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 379731002283 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 379731002284 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 379731002285 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 379731002286 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 379731002287 DNA binding site [nucleotide binding] 379731002288 Int/Topo IB signature motif; other site 379731002289 active site 379731002290 catalytic residues [active] 379731002291 AIPR protein; Region: AIPR; pfam10592 379731002292 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 379731002293 Transposase; Region: HTH_Tnp_1; pfam01527 379731002294 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731002295 Integrase core domain; Region: rve; pfam00665 379731002296 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 379731002297 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 379731002298 putative substrate binding site [chemical binding]; other site 379731002299 homodimer interface [polypeptide binding]; other site 379731002300 nucleotide binding site [chemical binding]; other site 379731002301 nucleotide binding site [chemical binding]; other site 379731002302 ornithine carbamoyltransferase; Validated; Region: PRK02102 379731002303 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 379731002304 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 379731002305 arginine deiminase; Provisional; Region: PRK01388 379731002306 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 379731002307 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 379731002308 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 379731002309 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 379731002310 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 379731002311 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 379731002312 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 379731002313 Walker A/P-loop; other site 379731002314 ATP binding site [chemical binding]; other site 379731002315 Q-loop/lid; other site 379731002316 ABC transporter signature motif; other site 379731002317 Walker B; other site 379731002318 D-loop; other site 379731002319 H-loop/switch region; other site 379731002320 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 379731002321 Walker A/P-loop; other site 379731002322 ATP binding site [chemical binding]; other site 379731002323 Q-loop/lid; other site 379731002324 ABC transporter signature motif; other site 379731002325 Walker B; other site 379731002326 D-loop; other site 379731002327 H-loop/switch region; other site 379731002328 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 379731002329 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 379731002330 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 379731002331 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 379731002332 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 379731002333 HlyD family secretion protein; Region: HlyD_3; pfam13437 379731002334 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 379731002335 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 379731002336 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 379731002337 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 379731002338 dimer interface [polypeptide binding]; other site 379731002339 active site 379731002340 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 379731002341 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 379731002342 NAD(P) binding site [chemical binding]; other site 379731002343 homotetramer interface [polypeptide binding]; other site 379731002344 homodimer interface [polypeptide binding]; other site 379731002345 active site 379731002346 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 379731002347 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 379731002348 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731002349 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 379731002350 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 379731002351 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 379731002352 NAD binding site [chemical binding]; other site 379731002353 homotetramer interface [polypeptide binding]; other site 379731002354 homodimer interface [polypeptide binding]; other site 379731002355 substrate binding site [chemical binding]; other site 379731002356 active site 379731002357 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 379731002358 propionate/acetate kinase; Provisional; Region: PRK12379 379731002359 phosphate acetyltransferase; Provisional; Region: PRK11890 379731002360 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 379731002361 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 379731002362 Phasin protein; Region: Phasin_2; pfam09361 379731002363 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 379731002364 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 379731002365 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 379731002366 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 379731002367 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 379731002368 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 379731002369 PGAP1-like protein; Region: PGAP1; pfam07819 379731002370 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 379731002371 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 379731002372 Transposase; Region: HTH_Tnp_1; cl17663 379731002373 HTH-like domain; Region: HTH_21; pfam13276 379731002374 Integrase core domain; Region: rve; pfam00665 379731002375 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 379731002376 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 379731002377 putative active site [active] 379731002378 putative NTP binding site [chemical binding]; other site 379731002379 putative nucleic acid binding site [nucleotide binding]; other site 379731002380 Homeodomain-like domain; Region: HTH_23; pfam13384 379731002381 Winged helix-turn helix; Region: HTH_29; pfam13551 379731002382 Winged helix-turn helix; Region: HTH_33; pfam13592 379731002383 DDE superfamily endonuclease; Region: DDE_3; pfam13358 379731002384 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 379731002385 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 379731002386 active site 379731002387 catalytic residues [active] 379731002388 DNA binding site [nucleotide binding] 379731002389 Int/Topo IB signature motif; other site 379731002390 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 379731002391 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 379731002392 non-specific DNA binding site [nucleotide binding]; other site 379731002393 salt bridge; other site 379731002394 sequence-specific DNA binding site [nucleotide binding]; other site 379731002395 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 379731002396 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 379731002397 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 379731002398 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 379731002399 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 379731002400 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 379731002401 DNA binding residues [nucleotide binding] 379731002402 DNA primase, catalytic core; Region: dnaG; TIGR01391 379731002403 CHC2 zinc finger; Region: zf-CHC2; pfam01807 379731002404 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 379731002405 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 379731002406 active site 379731002407 metal binding site [ion binding]; metal-binding site 379731002408 interdomain interaction site; other site 379731002409 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 379731002410 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 379731002411 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 379731002412 UGMP family protein; Validated; Region: PRK09604 379731002413 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 379731002414 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 379731002415 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 379731002416 homooctamer interface [polypeptide binding]; other site 379731002417 active site 379731002418 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 379731002419 catalytic center binding site [active] 379731002420 ATP binding site [chemical binding]; other site 379731002421 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 379731002422 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 379731002423 active site 379731002424 NTP binding site [chemical binding]; other site 379731002425 metal binding triad [ion binding]; metal-binding site 379731002426 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 379731002427 SpoVR family protein; Provisional; Region: PRK11767 379731002428 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 379731002429 hypothetical protein; Provisional; Region: PRK05325 379731002430 PrkA family serine protein kinase; Provisional; Region: PRK15455 379731002431 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 379731002432 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 379731002433 active site residue [active] 379731002434 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 379731002435 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 379731002436 active site 379731002437 metal binding site [ion binding]; metal-binding site 379731002438 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 379731002439 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 379731002440 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 379731002441 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 379731002442 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 379731002443 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 379731002444 SurA N-terminal domain; Region: SurA_N; pfam09312 379731002445 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 379731002446 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 379731002447 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 379731002448 OstA-like protein; Region: OstA; cl00844 379731002449 Organic solvent tolerance protein; Region: OstA_C; pfam04453 379731002450 Phosphotransferase enzyme family; Region: APH; pfam01636 379731002451 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 379731002452 active site 379731002453 ATP binding site [chemical binding]; other site 379731002454 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 379731002455 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 379731002456 Substrate binding site; other site 379731002457 metal-binding site 379731002458 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 379731002459 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 379731002460 putative metal binding site [ion binding]; other site 379731002461 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 379731002462 HSP70 interaction site [polypeptide binding]; other site 379731002463 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 379731002464 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 379731002465 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 379731002466 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 379731002467 substrate binding pocket [chemical binding]; other site 379731002468 membrane-bound complex binding site; other site 379731002469 hinge residues; other site 379731002470 PAS domain; Region: PAS_9; pfam13426 379731002471 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 379731002472 PAS fold; Region: PAS_3; pfam08447 379731002473 putative active site [active] 379731002474 heme pocket [chemical binding]; other site 379731002475 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 379731002476 Histidine kinase; Region: HisKA_3; pfam07730 379731002477 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 379731002478 ATP binding site [chemical binding]; other site 379731002479 Mg2+ binding site [ion binding]; other site 379731002480 G-X-G motif; other site 379731002481 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 379731002482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731002483 active site 379731002484 phosphorylation site [posttranslational modification] 379731002485 intermolecular recognition site; other site 379731002486 dimerization interface [polypeptide binding]; other site 379731002487 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 379731002488 DNA binding residues [nucleotide binding] 379731002489 dimerization interface [polypeptide binding]; other site 379731002490 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 379731002491 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 379731002492 Walker A/P-loop; other site 379731002493 ATP binding site [chemical binding]; other site 379731002494 Q-loop/lid; other site 379731002495 ABC transporter signature motif; other site 379731002496 Walker B; other site 379731002497 D-loop; other site 379731002498 H-loop/switch region; other site 379731002499 TOBE domain; Region: TOBE_2; pfam08402 379731002500 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 379731002501 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 379731002502 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731002503 dimer interface [polypeptide binding]; other site 379731002504 conserved gate region; other site 379731002505 putative PBP binding loops; other site 379731002506 ABC-ATPase subunit interface; other site 379731002507 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 379731002508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731002509 dimer interface [polypeptide binding]; other site 379731002510 conserved gate region; other site 379731002511 putative PBP binding loops; other site 379731002512 ABC-ATPase subunit interface; other site 379731002513 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 379731002514 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 379731002515 tetramerization interface [polypeptide binding]; other site 379731002516 NAD(P) binding site [chemical binding]; other site 379731002517 catalytic residues [active] 379731002518 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 379731002519 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 379731002520 inhibitor-cofactor binding pocket; inhibition site 379731002521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731002522 catalytic residue [active] 379731002523 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 379731002524 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 379731002525 metal binding site [ion binding]; metal-binding site 379731002526 substrate binding site [chemical binding]; other site 379731002527 hexamer interface [polypeptide binding]; other site 379731002528 phosphoglycolate phosphatase; Provisional; Region: PRK13222 379731002529 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 379731002530 motif II; other site 379731002531 anthranilate synthase component I; Provisional; Region: PRK13565 379731002532 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 379731002533 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 379731002534 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 379731002535 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 379731002536 glutamine binding [chemical binding]; other site 379731002537 catalytic triad [active] 379731002538 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 379731002539 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 379731002540 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 379731002541 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 379731002542 active site 379731002543 ribulose/triose binding site [chemical binding]; other site 379731002544 phosphate binding site [ion binding]; other site 379731002545 substrate (anthranilate) binding pocket [chemical binding]; other site 379731002546 product (indole) binding pocket [chemical binding]; other site 379731002547 OsmC-like protein; Region: OsmC; cl00767 379731002548 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 379731002549 diiron binding motif [ion binding]; other site 379731002550 Ycf46; Provisional; Region: ycf46; CHL00195 379731002551 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 379731002552 Walker A motif; other site 379731002553 ATP binding site [chemical binding]; other site 379731002554 Walker B motif; other site 379731002555 arginine finger; other site 379731002556 Protein of unknown function (DUF805); Region: DUF805; pfam05656 379731002557 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 379731002558 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 379731002559 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 379731002560 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 379731002561 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 379731002562 putative peptidase; Provisional; Region: PRK11649 379731002563 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 379731002564 Peptidase family M23; Region: Peptidase_M23; pfam01551 379731002565 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 379731002566 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 379731002567 active site 379731002568 HIGH motif; other site 379731002569 dimer interface [polypeptide binding]; other site 379731002570 KMSKS motif; other site 379731002571 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 379731002572 Biotin operon repressor [Transcription]; Region: BirA; COG1654 379731002573 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 379731002574 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 379731002575 pantothenate kinase; Reviewed; Region: PRK13322 379731002576 Sporulation related domain; Region: SPOR; cl10051 379731002577 Sporulation related domain; Region: SPOR; pfam05036 379731002578 elongation factor Tu; Reviewed; Region: PRK00049 379731002579 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 379731002580 G1 box; other site 379731002581 GEF interaction site [polypeptide binding]; other site 379731002582 GTP/Mg2+ binding site [chemical binding]; other site 379731002583 Switch I region; other site 379731002584 G2 box; other site 379731002585 G3 box; other site 379731002586 Switch II region; other site 379731002587 G4 box; other site 379731002588 G5 box; other site 379731002589 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 379731002590 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 379731002591 Antibiotic Binding Site [chemical binding]; other site 379731002592 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 379731002593 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 379731002594 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 379731002595 putative homodimer interface [polypeptide binding]; other site 379731002596 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 379731002597 heterodimer interface [polypeptide binding]; other site 379731002598 homodimer interface [polypeptide binding]; other site 379731002599 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 379731002600 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 379731002601 23S rRNA interface [nucleotide binding]; other site 379731002602 L7/L12 interface [polypeptide binding]; other site 379731002603 putative thiostrepton binding site; other site 379731002604 L25 interface [polypeptide binding]; other site 379731002605 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 379731002606 mRNA/rRNA interface [nucleotide binding]; other site 379731002607 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 379731002608 23S rRNA interface [nucleotide binding]; other site 379731002609 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 379731002610 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 379731002611 core dimer interface [polypeptide binding]; other site 379731002612 peripheral dimer interface [polypeptide binding]; other site 379731002613 L10 interface [polypeptide binding]; other site 379731002614 L11 interface [polypeptide binding]; other site 379731002615 putative EF-Tu interaction site [polypeptide binding]; other site 379731002616 putative EF-G interaction site [polypeptide binding]; other site 379731002617 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 379731002618 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 379731002619 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 379731002620 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 379731002621 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 379731002622 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 379731002623 RPB3 interaction site [polypeptide binding]; other site 379731002624 RPB1 interaction site [polypeptide binding]; other site 379731002625 RPB11 interaction site [polypeptide binding]; other site 379731002626 RPB10 interaction site [polypeptide binding]; other site 379731002627 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 379731002628 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 379731002629 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 379731002630 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 379731002631 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 379731002632 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 379731002633 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 379731002634 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 379731002635 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 379731002636 DNA binding site [nucleotide binding] 379731002637 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 379731002638 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 379731002639 S17 interaction site [polypeptide binding]; other site 379731002640 S8 interaction site; other site 379731002641 16S rRNA interaction site [nucleotide binding]; other site 379731002642 streptomycin interaction site [chemical binding]; other site 379731002643 23S rRNA interaction site [nucleotide binding]; other site 379731002644 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 379731002645 30S ribosomal protein S7; Validated; Region: PRK05302 379731002646 elongation factor G; Reviewed; Region: PRK00007 379731002647 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 379731002648 G1 box; other site 379731002649 putative GEF interaction site [polypeptide binding]; other site 379731002650 GTP/Mg2+ binding site [chemical binding]; other site 379731002651 Switch I region; other site 379731002652 G2 box; other site 379731002653 G3 box; other site 379731002654 Switch II region; other site 379731002655 G4 box; other site 379731002656 G5 box; other site 379731002657 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 379731002658 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 379731002659 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 379731002660 elongation factor Tu; Reviewed; Region: PRK00049 379731002661 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 379731002662 G1 box; other site 379731002663 GEF interaction site [polypeptide binding]; other site 379731002664 GTP/Mg2+ binding site [chemical binding]; other site 379731002665 Switch I region; other site 379731002666 G2 box; other site 379731002667 G3 box; other site 379731002668 Switch II region; other site 379731002669 G4 box; other site 379731002670 G5 box; other site 379731002671 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 379731002672 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 379731002673 Antibiotic Binding Site [chemical binding]; other site 379731002674 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 379731002675 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 379731002676 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 379731002677 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 379731002678 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 379731002679 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 379731002680 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 379731002681 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 379731002682 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 379731002683 protein-rRNA interface [nucleotide binding]; other site 379731002684 putative translocon binding site; other site 379731002685 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 379731002686 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 379731002687 G-X-X-G motif; other site 379731002688 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 379731002689 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 379731002690 23S rRNA interface [nucleotide binding]; other site 379731002691 5S rRNA interface [nucleotide binding]; other site 379731002692 putative antibiotic binding site [chemical binding]; other site 379731002693 L25 interface [polypeptide binding]; other site 379731002694 L27 interface [polypeptide binding]; other site 379731002695 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 379731002696 23S rRNA interface [nucleotide binding]; other site 379731002697 putative translocon interaction site; other site 379731002698 signal recognition particle (SRP54) interaction site; other site 379731002699 L23 interface [polypeptide binding]; other site 379731002700 trigger factor interaction site; other site 379731002701 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 379731002702 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 379731002703 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 379731002704 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 379731002705 RNA binding site [nucleotide binding]; other site 379731002706 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 379731002707 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 379731002708 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 379731002709 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 379731002710 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 379731002711 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 379731002712 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 379731002713 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 379731002714 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 379731002715 5S rRNA interface [nucleotide binding]; other site 379731002716 23S rRNA interface [nucleotide binding]; other site 379731002717 L5 interface [polypeptide binding]; other site 379731002718 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 379731002719 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 379731002720 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 379731002721 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 379731002722 23S rRNA binding site [nucleotide binding]; other site 379731002723 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 379731002724 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 379731002725 SecY translocase; Region: SecY; pfam00344 379731002726 Ribosomal protein L36 [Translation, ribosomal structure and biogenesis]; Region: RpmJ; COG0257 379731002727 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 379731002728 30S ribosomal protein S13; Region: bact_S13; TIGR03631 379731002729 30S ribosomal protein S11; Validated; Region: PRK05309 379731002730 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 379731002731 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 379731002732 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 379731002733 RNA binding surface [nucleotide binding]; other site 379731002734 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 379731002735 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 379731002736 alphaNTD homodimer interface [polypeptide binding]; other site 379731002737 alphaNTD - beta interaction site [polypeptide binding]; other site 379731002738 alphaNTD - beta' interaction site [polypeptide binding]; other site 379731002739 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 379731002740 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 379731002741 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 379731002742 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 379731002743 tetramer interface [polypeptide binding]; other site 379731002744 heme binding pocket [chemical binding]; other site 379731002745 NADPH binding site [chemical binding]; other site 379731002746 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 379731002747 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 379731002748 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 379731002749 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 379731002750 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731002751 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731002752 putative substrate translocation pore; other site 379731002753 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 379731002754 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 379731002755 dimer interface [polypeptide binding]; other site 379731002756 ssDNA binding site [nucleotide binding]; other site 379731002757 tetramer (dimer of dimers) interface [polypeptide binding]; other site 379731002758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731002759 active site 379731002760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731002761 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 379731002762 NAD(P) binding site [chemical binding]; other site 379731002763 active site 379731002764 OmpW family; Region: OmpW; cl17427 379731002765 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 379731002766 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 379731002767 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 379731002768 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 379731002769 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 379731002770 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 379731002771 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 379731002772 binding surface 379731002773 TPR motif; other site 379731002774 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 379731002775 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 379731002776 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 379731002777 FtsX-like permease family; Region: FtsX; pfam02687 379731002778 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 379731002779 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 379731002780 Walker A/P-loop; other site 379731002781 ATP binding site [chemical binding]; other site 379731002782 Q-loop/lid; other site 379731002783 ABC transporter signature motif; other site 379731002784 Walker B; other site 379731002785 D-loop; other site 379731002786 H-loop/switch region; other site 379731002787 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 379731002788 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 379731002789 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 379731002790 putative inner membrane protein; Provisional; Region: PRK11099 379731002791 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; cl00436 379731002792 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 379731002793 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 379731002794 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 379731002795 Predicted methyltransferase [General function prediction only]; Region: COG3897 379731002796 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 379731002797 ATP cone domain; Region: ATP-cone; pfam03477 379731002798 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 379731002799 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 379731002800 catalytic motif [active] 379731002801 Zn binding site [ion binding]; other site 379731002802 RibD C-terminal domain; Region: RibD_C; cl17279 379731002803 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 379731002804 Lumazine binding domain; Region: Lum_binding; pfam00677 379731002805 Lumazine binding domain; Region: Lum_binding; pfam00677 379731002806 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 379731002807 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 379731002808 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 379731002809 dimerization interface [polypeptide binding]; other site 379731002810 active site 379731002811 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 379731002812 homopentamer interface [polypeptide binding]; other site 379731002813 active site 379731002814 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 379731002815 putative RNA binding site [nucleotide binding]; other site 379731002816 thiamine monophosphate kinase; Provisional; Region: PRK05731 379731002817 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 379731002818 ATP binding site [chemical binding]; other site 379731002819 dimerization interface [polypeptide binding]; other site 379731002820 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 379731002821 tetramer interfaces [polypeptide binding]; other site 379731002822 binuclear metal-binding site [ion binding]; other site 379731002823 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 379731002824 catalytic motif [active] 379731002825 Catalytic residue [active] 379731002826 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 379731002827 dimerization interface [polypeptide binding]; other site 379731002828 active site 379731002829 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 379731002830 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 379731002831 cobalamin binding residues [chemical binding]; other site 379731002832 putative BtuC binding residues; other site 379731002833 dimer interface [polypeptide binding]; other site 379731002834 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 379731002835 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 379731002836 N-terminal plug; other site 379731002837 ligand-binding site [chemical binding]; other site 379731002838 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731002839 Walker A/P-loop; other site 379731002840 ATP binding site [chemical binding]; other site 379731002841 Q-loop/lid; other site 379731002842 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731002843 ABC transporter signature motif; other site 379731002844 Walker B; other site 379731002845 D-loop; other site 379731002846 H-loop/switch region; other site 379731002847 exonuclease subunit SbcD; Provisional; Region: PRK10966 379731002848 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 379731002849 active site 379731002850 metal binding site [ion binding]; metal-binding site 379731002851 DNA binding site [nucleotide binding] 379731002852 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 379731002853 WYL domain; Region: WYL; pfam13280 379731002854 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 379731002855 ATP binding site [chemical binding]; other site 379731002856 Mg2+ binding site [ion binding]; other site 379731002857 G-X-G motif; other site 379731002858 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 379731002859 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731002860 active site 379731002861 phosphorylation site [posttranslational modification] 379731002862 intermolecular recognition site; other site 379731002863 dimerization interface [polypeptide binding]; other site 379731002864 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 379731002865 DNA binding site [nucleotide binding] 379731002866 Predicted membrane protein [Function unknown]; Region: COG3212 379731002867 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 379731002868 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 379731002869 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 379731002870 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 379731002871 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 379731002872 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 379731002873 probable active site [active] 379731002874 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 379731002875 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_2; cd08974 379731002876 putative DNA binding site [nucleotide binding]; other site 379731002877 catalytic residue [active] 379731002878 putative H2TH interface [polypeptide binding]; other site 379731002879 putative catalytic residues [active] 379731002880 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 379731002881 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 379731002882 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 379731002883 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 379731002884 active site 379731002885 thymidine phosphorylase; Provisional; Region: PRK04350 379731002886 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 379731002887 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 379731002888 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 379731002889 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 379731002890 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 379731002891 NAD binding site [chemical binding]; other site 379731002892 homotetramer interface [polypeptide binding]; other site 379731002893 homodimer interface [polypeptide binding]; other site 379731002894 substrate binding site [chemical binding]; other site 379731002895 active site 379731002896 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 379731002897 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 379731002898 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 379731002899 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 379731002900 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 379731002901 putative DNA binding site [nucleotide binding]; other site 379731002902 putative Zn2+ binding site [ion binding]; other site 379731002903 AsnC family; Region: AsnC_trans_reg; pfam01037 379731002904 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 379731002905 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 379731002906 dimer interface [polypeptide binding]; other site 379731002907 PYR/PP interface [polypeptide binding]; other site 379731002908 TPP binding site [chemical binding]; other site 379731002909 substrate binding site [chemical binding]; other site 379731002910 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 379731002911 TPP-binding site [chemical binding]; other site 379731002912 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 379731002913 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 379731002914 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 379731002915 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 379731002916 NAD binding site [chemical binding]; other site 379731002917 Phe binding site; other site 379731002918 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 379731002919 Na2 binding site [ion binding]; other site 379731002920 putative substrate binding site 1 [chemical binding]; other site 379731002921 Na binding site 1 [ion binding]; other site 379731002922 putative substrate binding site 2 [chemical binding]; other site 379731002923 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 379731002924 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 379731002925 dimer interface [polypeptide binding]; other site 379731002926 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 379731002927 active site 379731002928 Fe binding site [ion binding]; other site 379731002929 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 379731002930 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 379731002931 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 379731002932 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 379731002933 maleylacetoacetate isomerase; Region: maiA; TIGR01262 379731002934 C-terminal domain interface [polypeptide binding]; other site 379731002935 GSH binding site (G-site) [chemical binding]; other site 379731002936 putative dimer interface [polypeptide binding]; other site 379731002937 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 379731002938 dimer interface [polypeptide binding]; other site 379731002939 N-terminal domain interface [polypeptide binding]; other site 379731002940 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 379731002941 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 379731002942 Na2 binding site [ion binding]; other site 379731002943 putative substrate binding site 1 [chemical binding]; other site 379731002944 Na binding site 1 [ion binding]; other site 379731002945 putative substrate binding site 2 [chemical binding]; other site 379731002946 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 379731002947 Cache domain; Region: Cache_1; pfam02743 379731002948 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 379731002949 dimerization interface [polypeptide binding]; other site 379731002950 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731002951 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731002952 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731002953 dimer interface [polypeptide binding]; other site 379731002954 putative CheW interface [polypeptide binding]; other site 379731002955 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 379731002956 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 379731002957 potential catalytic triad [active] 379731002958 conserved cys residue [active] 379731002959 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 379731002960 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 379731002961 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 379731002962 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 379731002963 TrkA-N domain; Region: TrkA_N; pfam02254 379731002964 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 379731002965 putative Mg++ binding site [ion binding]; other site 379731002966 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 379731002967 nucleotide binding region [chemical binding]; other site 379731002968 ATP-binding site [chemical binding]; other site 379731002969 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 379731002970 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 379731002971 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731002972 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 379731002973 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731002974 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 379731002975 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 379731002976 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 379731002977 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 379731002978 putative active site [active] 379731002979 Zn binding site [ion binding]; other site 379731002980 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 379731002981 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 379731002982 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 379731002983 active site 379731002984 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 379731002985 catalytic triad [active] 379731002986 dimer interface [polypeptide binding]; other site 379731002987 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 379731002988 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 379731002989 motif II; other site 379731002990 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 379731002991 Predicted metalloprotease [General function prediction only]; Region: COG2321 379731002992 Predicted metal-binding protein [General function prediction only]; Region: COG3019 379731002993 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 379731002994 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 379731002995 ligand binding site [chemical binding]; other site 379731002996 flexible hinge region; other site 379731002997 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 379731002998 putative switch regulator; other site 379731002999 non-specific DNA interactions [nucleotide binding]; other site 379731003000 DNA binding site [nucleotide binding] 379731003001 sequence specific DNA binding site [nucleotide binding]; other site 379731003002 putative cAMP binding site [chemical binding]; other site 379731003003 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 379731003004 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 379731003005 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731003006 active site 379731003007 phosphorylation site [posttranslational modification] 379731003008 intermolecular recognition site; other site 379731003009 dimerization interface [polypeptide binding]; other site 379731003010 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 379731003011 DNA binding residues [nucleotide binding] 379731003012 dimerization interface [polypeptide binding]; other site 379731003013 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 379731003014 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 379731003015 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 379731003016 dimerization interface [polypeptide binding]; other site 379731003017 Histidine kinase; Region: HisKA_3; pfam07730 379731003018 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 379731003019 ATP binding site [chemical binding]; other site 379731003020 Mg2+ binding site [ion binding]; other site 379731003021 G-X-G motif; other site 379731003022 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 379731003023 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 379731003024 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 379731003025 Ligand Binding Site [chemical binding]; other site 379731003026 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731003027 putative substrate translocation pore; other site 379731003028 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731003029 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 379731003030 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 379731003031 [4Fe-4S] binding site [ion binding]; other site 379731003032 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 379731003033 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 379731003034 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 379731003035 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 379731003036 molybdopterin cofactor binding site; other site 379731003037 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 379731003038 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 379731003039 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 379731003040 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 379731003041 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 379731003042 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 379731003043 FeS/SAM binding site; other site 379731003044 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 379731003045 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 379731003046 MPT binding site; other site 379731003047 trimer interface [polypeptide binding]; other site 379731003048 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 379731003049 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 379731003050 dimer interface [polypeptide binding]; other site 379731003051 putative functional site; other site 379731003052 putative MPT binding site; other site 379731003053 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 379731003054 sensor protein QseC; Provisional; Region: PRK10337 379731003055 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731003056 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 379731003057 dimer interface [polypeptide binding]; other site 379731003058 phosphorylation site [posttranslational modification] 379731003059 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 379731003060 ATP binding site [chemical binding]; other site 379731003061 Mg2+ binding site [ion binding]; other site 379731003062 G-X-G motif; other site 379731003063 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 379731003064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731003065 active site 379731003066 phosphorylation site [posttranslational modification] 379731003067 intermolecular recognition site; other site 379731003068 dimerization interface [polypeptide binding]; other site 379731003069 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 379731003070 DNA binding site [nucleotide binding] 379731003071 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 379731003072 TPR motif; other site 379731003073 binding surface 379731003074 short chain dehydrogenase; Provisional; Region: PRK09072 379731003075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731003076 NAD(P) binding site [chemical binding]; other site 379731003077 active site 379731003078 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 379731003079 heme binding pocket [chemical binding]; other site 379731003080 heme ligand [chemical binding]; other site 379731003081 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 379731003082 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 379731003083 acyl-activating enzyme (AAE) consensus motif; other site 379731003084 putative AMP binding site [chemical binding]; other site 379731003085 putative active site [active] 379731003086 putative CoA binding site [chemical binding]; other site 379731003087 Thermostable hemolysin; Region: T_hemolysin; pfam12261 379731003088 SdiA-regulated; Region: SdiA-regulated; pfam06977 379731003089 SdiA-regulated; Region: SdiA-regulated; cd09971 379731003090 putative active site [active] 379731003091 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 379731003092 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731003093 active site 379731003094 phosphorylation site [posttranslational modification] 379731003095 intermolecular recognition site; other site 379731003096 dimerization interface [polypeptide binding]; other site 379731003097 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 379731003098 DNA binding site [nucleotide binding] 379731003099 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731003100 HAMP domain; Region: HAMP; pfam00672 379731003101 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 379731003102 dimer interface [polypeptide binding]; other site 379731003103 phosphorylation site [posttranslational modification] 379731003104 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 379731003105 ATP binding site [chemical binding]; other site 379731003106 Mg2+ binding site [ion binding]; other site 379731003107 G-X-G motif; other site 379731003108 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 379731003109 S-adenosylmethionine binding site [chemical binding]; other site 379731003110 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 379731003111 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 379731003112 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 379731003113 Sulfatase; Region: Sulfatase; pfam00884 379731003114 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 379731003115 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 379731003116 S-adenosylmethionine binding site [chemical binding]; other site 379731003117 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 379731003118 DJ-1 family protein; Region: not_thiJ; TIGR01383 379731003119 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 379731003120 conserved cys residue [active] 379731003121 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 379731003122 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 379731003123 XdhC Rossmann domain; Region: XdhC_C; pfam13478 379731003124 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 379731003125 Ligand binding site; other site 379731003126 metal-binding site 379731003127 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 379731003128 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 379731003129 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 379731003130 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 379731003131 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 379731003132 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 379731003133 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 379731003134 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 379731003135 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 379731003136 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 379731003137 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 379731003138 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 379731003139 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 379731003140 DNA binding residues [nucleotide binding] 379731003141 putative dimer interface [polypeptide binding]; other site 379731003142 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 379731003143 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 379731003144 S-adenosylmethionine binding site [chemical binding]; other site 379731003145 ferredoxin-NADP reductase; Provisional; Region: PRK10926 379731003146 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 379731003147 FAD binding pocket [chemical binding]; other site 379731003148 FAD binding motif [chemical binding]; other site 379731003149 phosphate binding motif [ion binding]; other site 379731003150 beta-alpha-beta structure motif; other site 379731003151 NAD binding pocket [chemical binding]; other site 379731003152 glutamate dehydrogenase; Provisional; Region: PRK09414 379731003153 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 379731003154 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 379731003155 NAD(P) binding site [chemical binding]; other site 379731003156 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731003157 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731003158 metal binding site [ion binding]; metal-binding site 379731003159 active site 379731003160 I-site; other site 379731003161 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 379731003162 Cache domain; Region: Cache_1; pfam02743 379731003163 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 379731003164 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 379731003165 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 379731003166 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 379731003167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731003168 Walker A/P-loop; other site 379731003169 ATP binding site [chemical binding]; other site 379731003170 Q-loop/lid; other site 379731003171 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 379731003172 ABC transporter signature motif; other site 379731003173 Walker B; other site 379731003174 D-loop; other site 379731003175 ABC transporter; Region: ABC_tran_2; pfam12848 379731003176 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 379731003177 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 379731003178 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 379731003179 dimer interface [polypeptide binding]; other site 379731003180 active site 379731003181 glycine-pyridoxal phosphate binding site [chemical binding]; other site 379731003182 folate binding site [chemical binding]; other site 379731003183 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 379731003184 PilZ domain; Region: PilZ; pfam07238 379731003185 DNA repair protein RadA; Provisional; Region: PRK11823 379731003186 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 379731003187 Walker A motif/ATP binding site; other site 379731003188 ATP binding site [chemical binding]; other site 379731003189 Walker B motif; other site 379731003190 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 379731003191 Protein of unknown function (DUF465); Region: DUF465; cl01070 379731003192 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 379731003193 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 379731003194 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 379731003195 AAA domain; Region: AAA_32; pfam13654 379731003196 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 379731003197 hypothetical protein; Provisional; Region: PRK05208 379731003198 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 379731003199 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 379731003200 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 379731003201 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 379731003202 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 379731003203 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 379731003204 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 379731003205 substrate binding pocket [chemical binding]; other site 379731003206 chain length determination region; other site 379731003207 substrate-Mg2+ binding site; other site 379731003208 catalytic residues [active] 379731003209 aspartate-rich region 1; other site 379731003210 active site lid residues [active] 379731003211 aspartate-rich region 2; other site 379731003212 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 379731003213 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 379731003214 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 379731003215 GTPase CgtA; Reviewed; Region: obgE; PRK12298 379731003216 GTP1/OBG; Region: GTP1_OBG; pfam01018 379731003217 Obg GTPase; Region: Obg; cd01898 379731003218 G1 box; other site 379731003219 GTP/Mg2+ binding site [chemical binding]; other site 379731003220 Switch I region; other site 379731003221 G2 box; other site 379731003222 G3 box; other site 379731003223 Switch II region; other site 379731003224 G4 box; other site 379731003225 G5 box; other site 379731003226 gamma-glutamyl kinase; Provisional; Region: PRK05429 379731003227 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 379731003228 nucleotide binding site [chemical binding]; other site 379731003229 homotetrameric interface [polypeptide binding]; other site 379731003230 putative phosphate binding site [ion binding]; other site 379731003231 putative allosteric binding site; other site 379731003232 PUA domain; Region: PUA; pfam01472 379731003233 hypothetical protein; Provisional; Region: PRK10756 379731003234 CreA protein; Region: CreA; pfam05981 379731003235 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 379731003236 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 379731003237 MviN-like protein; Region: MVIN; pfam03023 379731003238 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 379731003239 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 379731003240 active site 379731003241 Riboflavin kinase; Region: Flavokinase; smart00904 379731003242 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 379731003243 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 379731003244 active site 379731003245 HIGH motif; other site 379731003246 nucleotide binding site [chemical binding]; other site 379731003247 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 379731003248 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 379731003249 active site 379731003250 KMSKS motif; other site 379731003251 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 379731003252 tRNA binding surface [nucleotide binding]; other site 379731003253 anticodon binding site; other site 379731003254 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 379731003255 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 379731003256 lipoprotein signal peptidase; Provisional; Region: PRK14787 379731003257 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 379731003258 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 379731003259 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 379731003260 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 379731003261 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 379731003262 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 379731003263 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 379731003264 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 379731003265 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 379731003266 PilX N-terminal; Region: PilX_N; pfam14341 379731003267 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 379731003268 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 379731003269 Type II transport protein GspH; Region: GspH; pfam12019 379731003270 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 379731003271 Type II transport protein GspH; Region: GspH; pfam12019 379731003272 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 379731003273 translation initiation factor Sui1; Validated; Region: PRK06824 379731003274 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 379731003275 putative rRNA binding site [nucleotide binding]; other site 379731003276 arginine decarboxylase; Provisional; Region: PRK05354 379731003277 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 379731003278 dimer interface [polypeptide binding]; other site 379731003279 active site 379731003280 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 379731003281 catalytic residues [active] 379731003282 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 379731003283 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 379731003284 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 379731003285 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 379731003286 SdiA-regulated; Region: SdiA-regulated; pfam06977 379731003287 SdiA-regulated; Region: SdiA-regulated; cd09971 379731003288 putative active site [active] 379731003289 Protein of unknown function, DUF606; Region: DUF606; pfam04657 379731003290 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 379731003291 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 379731003292 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 379731003293 S-adenosylmethionine binding site [chemical binding]; other site 379731003294 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 379731003295 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 379731003296 DNA binding site [nucleotide binding] 379731003297 domain linker motif; other site 379731003298 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 379731003299 dimerization interface [polypeptide binding]; other site 379731003300 ligand binding site [chemical binding]; other site 379731003301 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 379731003302 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 379731003303 active site 379731003304 phosphorylation site [posttranslational modification] 379731003305 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 379731003306 regulatory protein interface [polypeptide binding]; other site 379731003307 active site 379731003308 regulatory phosphorylation site [posttranslational modification]; other site 379731003309 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 379731003310 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 379731003311 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 379731003312 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 379731003313 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 379731003314 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 379731003315 putative substrate binding site [chemical binding]; other site 379731003316 putative ATP binding site [chemical binding]; other site 379731003317 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 379731003318 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 379731003319 active site 379731003320 P-loop; other site 379731003321 phosphorylation site [posttranslational modification] 379731003322 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 379731003323 active site 379731003324 P-loop; other site 379731003325 phosphorylation site [posttranslational modification] 379731003326 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 379731003327 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 379731003328 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 379731003329 Trp docking motif [polypeptide binding]; other site 379731003330 putative active site [active] 379731003331 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 379731003332 putative active site [active] 379731003333 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 379731003334 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 379731003335 G1 box; other site 379731003336 putative GEF interaction site [polypeptide binding]; other site 379731003337 GTP/Mg2+ binding site [chemical binding]; other site 379731003338 Switch I region; other site 379731003339 G2 box; other site 379731003340 G3 box; other site 379731003341 Switch II region; other site 379731003342 G4 box; other site 379731003343 G5 box; other site 379731003344 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 379731003345 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 379731003346 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 379731003347 dimer interface [polypeptide binding]; other site 379731003348 active site 379731003349 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 379731003350 catalytic residues [active] 379731003351 substrate binding site [chemical binding]; other site 379731003352 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 379731003353 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 379731003354 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 379731003355 N-terminal plug; other site 379731003356 ligand-binding site [chemical binding]; other site 379731003357 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 379731003358 Flavodoxin; Region: Flavodoxin_1; pfam00258 379731003359 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 379731003360 FAD binding pocket [chemical binding]; other site 379731003361 FAD binding motif [chemical binding]; other site 379731003362 catalytic residues [active] 379731003363 NAD binding pocket [chemical binding]; other site 379731003364 phosphate binding motif [ion binding]; other site 379731003365 beta-alpha-beta structure motif; other site 379731003366 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 379731003367 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 379731003368 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 379731003369 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 379731003370 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 379731003371 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 379731003372 N-terminal plug; other site 379731003373 ligand-binding site [chemical binding]; other site 379731003374 Uncharacterized conserved protein [Function unknown]; Region: COG2968 379731003375 Protein of unknown function (DUF541); Region: SIMPL; cl01077 379731003376 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731003377 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 379731003378 ATP binding site [chemical binding]; other site 379731003379 G-X-G motif; other site 379731003380 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 379731003381 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731003382 active site 379731003383 phosphorylation site [posttranslational modification] 379731003384 intermolecular recognition site; other site 379731003385 dimerization interface [polypeptide binding]; other site 379731003386 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 379731003387 Predicted permeases [General function prediction only]; Region: COG0679 379731003388 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 379731003389 Peptidase family M23; Region: Peptidase_M23; pfam01551 379731003390 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 379731003391 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 379731003392 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 379731003393 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 379731003394 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 379731003395 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 379731003396 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 379731003397 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 379731003398 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 379731003399 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 379731003400 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 379731003401 GatB domain; Region: GatB_Yqey; smart00845 379731003402 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 379731003403 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 379731003404 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 379731003405 rod shape-determining protein MreB; Provisional; Region: PRK13927 379731003406 MreB and similar proteins; Region: MreB_like; cd10225 379731003407 nucleotide binding site [chemical binding]; other site 379731003408 Mg binding site [ion binding]; other site 379731003409 putative protofilament interaction site [polypeptide binding]; other site 379731003410 RodZ interaction site [polypeptide binding]; other site 379731003411 rod shape-determining protein MreC; Provisional; Region: PRK13922 379731003412 Baculovirus gp64 envelope glycoprotein family; Region: Baculo_gp64; pfam03273 379731003413 rod shape-determining protein MreC; Region: MreC; pfam04085 379731003414 rod shape-determining protein MreD; Region: MreD; cl01087 379731003415 PEGA domain; Region: PEGA; pfam08308 379731003416 Maf-like protein; Region: Maf; pfam02545 379731003417 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 379731003418 active site 379731003419 dimer interface [polypeptide binding]; other site 379731003420 ribonuclease G; Provisional; Region: PRK11712 379731003421 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 379731003422 homodimer interface [polypeptide binding]; other site 379731003423 oligonucleotide binding site [chemical binding]; other site 379731003424 TIGR02099 family protein; Region: TIGR02099 379731003425 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 379731003426 nitrilase; Region: PLN02798 379731003427 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 379731003428 putative active site [active] 379731003429 catalytic triad [active] 379731003430 dimer interface [polypeptide binding]; other site 379731003431 protease TldD; Provisional; Region: tldD; PRK10735 379731003432 hypothetical protein; Provisional; Region: PRK05255 379731003433 peptidase PmbA; Provisional; Region: PRK11040 379731003434 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 379731003435 dimerization domain swap beta strand [polypeptide binding]; other site 379731003436 regulatory protein interface [polypeptide binding]; other site 379731003437 active site 379731003438 regulatory phosphorylation site [posttranslational modification]; other site 379731003439 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 379731003440 AAA domain; Region: AAA_18; pfam13238 379731003441 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 379731003442 active site 379731003443 phosphorylation site [posttranslational modification] 379731003444 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 379731003445 30S subunit binding site; other site 379731003446 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 379731003447 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 379731003448 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 379731003449 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 379731003450 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 379731003451 Walker A/P-loop; other site 379731003452 ATP binding site [chemical binding]; other site 379731003453 Q-loop/lid; other site 379731003454 ABC transporter signature motif; other site 379731003455 Walker B; other site 379731003456 D-loop; other site 379731003457 H-loop/switch region; other site 379731003458 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 379731003459 OstA-like protein; Region: OstA; pfam03968 379731003460 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 379731003461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 379731003462 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 379731003463 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 379731003464 active site 379731003465 motif I; other site 379731003466 motif II; other site 379731003467 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 379731003468 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 379731003469 putative active site [active] 379731003470 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 379731003471 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 379731003472 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 379731003473 Walker A/P-loop; other site 379731003474 ATP binding site [chemical binding]; other site 379731003475 Q-loop/lid; other site 379731003476 ABC transporter signature motif; other site 379731003477 Walker B; other site 379731003478 D-loop; other site 379731003479 H-loop/switch region; other site 379731003480 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 379731003481 conserved hypothetical integral membrane protein; Region: TIGR00056 379731003482 mce related protein; Region: MCE; pfam02470 379731003483 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 379731003484 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 379731003485 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 379731003486 anti sigma factor interaction site; other site 379731003487 regulatory phosphorylation site [posttranslational modification]; other site 379731003488 Predicted membrane protein [Function unknown]; Region: COG3223 379731003489 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 379731003490 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 379731003491 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 379731003492 hinge; other site 379731003493 active site 379731003494 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 379731003495 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 379731003496 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 379731003497 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 379731003498 NAD binding site [chemical binding]; other site 379731003499 dimerization interface [polypeptide binding]; other site 379731003500 product binding site; other site 379731003501 substrate binding site [chemical binding]; other site 379731003502 zinc binding site [ion binding]; other site 379731003503 catalytic residues [active] 379731003504 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 379731003505 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 379731003506 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731003507 homodimer interface [polypeptide binding]; other site 379731003508 catalytic residue [active] 379731003509 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 379731003510 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 379731003511 protein binding site [polypeptide binding]; other site 379731003512 Uncharacterized conserved protein [Function unknown]; Region: COG0327 379731003513 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 379731003514 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 379731003515 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 379731003516 Active Sites [active] 379731003517 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 379731003518 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 379731003519 CysD dimerization site [polypeptide binding]; other site 379731003520 G1 box; other site 379731003521 putative GEF interaction site [polypeptide binding]; other site 379731003522 GTP/Mg2+ binding site [chemical binding]; other site 379731003523 Switch I region; other site 379731003524 G2 box; other site 379731003525 G3 box; other site 379731003526 Switch II region; other site 379731003527 G4 box; other site 379731003528 G5 box; other site 379731003529 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 379731003530 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 379731003531 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 379731003532 ligand-binding site [chemical binding]; other site 379731003533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 379731003534 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 379731003535 Pilin (bacterial filament); Region: Pilin; pfam00114 379731003536 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 379731003537 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 379731003538 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 379731003539 Walker A motif; other site 379731003540 ATP binding site [chemical binding]; other site 379731003541 Walker B motif; other site 379731003542 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 379731003543 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 379731003544 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 379731003545 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 379731003546 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 379731003547 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 379731003548 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 379731003549 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 379731003550 CoA-binding site [chemical binding]; other site 379731003551 ATP-binding [chemical binding]; other site 379731003552 Predicted membrane protein [Function unknown]; Region: COG3235 379731003553 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 379731003554 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 379731003555 active site 379731003556 catalytic tetrad [active] 379731003557 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 379731003558 23S rRNA interface [nucleotide binding]; other site 379731003559 L3 interface [polypeptide binding]; other site 379731003560 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 379731003561 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 379731003562 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 379731003563 [2Fe-2S] cluster binding site [ion binding]; other site 379731003564 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 379731003565 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 379731003566 Qi binding site; other site 379731003567 intrachain domain interface; other site 379731003568 interchain domain interface [polypeptide binding]; other site 379731003569 heme bH binding site [chemical binding]; other site 379731003570 heme bL binding site [chemical binding]; other site 379731003571 Qo binding site; other site 379731003572 interchain domain interface [polypeptide binding]; other site 379731003573 intrachain domain interface; other site 379731003574 Qi binding site; other site 379731003575 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 379731003576 Qo binding site; other site 379731003577 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 379731003578 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 379731003579 stringent starvation protein A; Provisional; Region: sspA; PRK09481 379731003580 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 379731003581 dimer interface [polypeptide binding]; other site 379731003582 N-terminal domain interface [polypeptide binding]; other site 379731003583 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 379731003584 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 379731003585 BON domain; Region: BON; pfam04972 379731003586 BON domain; Region: BON; pfam04972 379731003587 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 379731003588 dimer interface [polypeptide binding]; other site 379731003589 active site 379731003590 hypothetical protein; Reviewed; Region: PRK12497 379731003591 LppC putative lipoprotein; Region: LppC; pfam04348 379731003592 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 379731003593 putative ligand binding site [chemical binding]; other site 379731003594 Predicted methyltransferases [General function prediction only]; Region: COG0313 379731003595 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 379731003596 putative SAM binding site [chemical binding]; other site 379731003597 putative homodimer interface [polypeptide binding]; other site 379731003598 cell division protein MraZ; Reviewed; Region: PRK00326 379731003599 MraZ protein; Region: MraZ; pfam02381 379731003600 MraZ protein; Region: MraZ; pfam02381 379731003601 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 379731003602 MraW methylase family; Region: Methyltransf_5; cl17771 379731003603 Cell division protein FtsL; Region: FtsL; pfam04999 379731003604 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 379731003605 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 379731003606 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 379731003607 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 379731003608 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 379731003609 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 379731003610 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 379731003611 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 379731003612 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 379731003613 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 379731003614 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 379731003615 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 379731003616 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 379731003617 Mg++ binding site [ion binding]; other site 379731003618 putative catalytic motif [active] 379731003619 putative substrate binding site [chemical binding]; other site 379731003620 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 379731003621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731003622 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 379731003623 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 379731003624 cell division protein FtsW; Region: ftsW; TIGR02614 379731003625 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 379731003626 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 379731003627 active site 379731003628 homodimer interface [polypeptide binding]; other site 379731003629 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 379731003630 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 379731003631 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 379731003632 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 379731003633 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 379731003634 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 379731003635 ATP-grasp domain; Region: ATP-grasp_4; cl17255 379731003636 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 379731003637 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 379731003638 Cell division protein FtsQ; Region: FtsQ; pfam03799 379731003639 cell division protein FtsA; Region: ftsA; TIGR01174 379731003640 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 379731003641 nucleotide binding site [chemical binding]; other site 379731003642 Cell division protein FtsA; Region: FtsA; pfam14450 379731003643 cell division protein FtsZ; Validated; Region: PRK09330 379731003644 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 379731003645 nucleotide binding site [chemical binding]; other site 379731003646 SulA interaction site; other site 379731003647 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 379731003648 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 379731003649 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 379731003650 Transposase; Region: DDE_Tnp_ISL3; pfam01610 379731003651 Ferritin-like domain; Region: Ferritin; pfam00210 379731003652 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 379731003653 dinuclear metal binding motif [ion binding]; other site 379731003654 transcription termination factor Rho; Provisional; Region: rho; PRK09376 379731003655 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 379731003656 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 379731003657 MgtC family; Region: MgtC; pfam02308 379731003658 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 379731003659 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 379731003660 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 379731003661 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 379731003662 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 379731003663 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 379731003664 NAD binding site [chemical binding]; other site 379731003665 homodimer interface [polypeptide binding]; other site 379731003666 active site 379731003667 putative transporter; Provisional; Region: PRK11660 379731003668 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 379731003669 Sulfate transporter family; Region: Sulfate_transp; pfam00916 379731003670 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 379731003671 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 379731003672 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 379731003673 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 379731003674 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 379731003675 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 379731003676 putative acyl-acceptor binding pocket; other site 379731003677 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 379731003678 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 379731003679 Uncharacterized conserved protein [Function unknown]; Region: COG2135 379731003680 Peptidase family M48; Region: Peptidase_M48; pfam01435 379731003681 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 379731003682 Predicted membrane protein [Function unknown]; Region: COG2119 379731003683 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 379731003684 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 379731003685 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 379731003686 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 379731003687 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 379731003688 S-adenosylmethionine binding site [chemical binding]; other site 379731003689 glycerate dehydrogenase; Provisional; Region: PRK06487 379731003690 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 379731003691 putative ligand binding site [chemical binding]; other site 379731003692 putative NAD binding site [chemical binding]; other site 379731003693 catalytic site [active] 379731003694 LysE type translocator; Region: LysE; cl00565 379731003695 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 379731003696 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 379731003697 acyl-activating enzyme (AAE) consensus motif; other site 379731003698 AMP binding site [chemical binding]; other site 379731003699 active site 379731003700 CoA binding site [chemical binding]; other site 379731003701 PAS domain; Region: PAS_9; pfam13426 379731003702 PAS fold; Region: PAS_3; pfam08447 379731003703 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 379731003704 ATP binding site [chemical binding]; other site 379731003705 G-X-G motif; other site 379731003706 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731003707 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731003708 active site 379731003709 phosphorylation site [posttranslational modification] 379731003710 intermolecular recognition site; other site 379731003711 dimerization interface [polypeptide binding]; other site 379731003712 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 379731003713 putative outer membrane lipoprotein; Provisional; Region: PRK10510 379731003714 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731003715 ligand binding site [chemical binding]; other site 379731003716 CHASE domain; Region: CHASE; pfam03924 379731003717 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 379731003718 PAS domain; Region: PAS_9; pfam13426 379731003719 putative active site [active] 379731003720 heme pocket [chemical binding]; other site 379731003721 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 379731003722 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 379731003723 putative active site [active] 379731003724 heme pocket [chemical binding]; other site 379731003725 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 379731003726 dimer interface [polypeptide binding]; other site 379731003727 phosphorylation site [posttranslational modification] 379731003728 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 379731003729 ATP binding site [chemical binding]; other site 379731003730 Mg2+ binding site [ion binding]; other site 379731003731 G-X-G motif; other site 379731003732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731003733 Response regulator receiver domain; Region: Response_reg; pfam00072 379731003734 active site 379731003735 phosphorylation site [posttranslational modification] 379731003736 intermolecular recognition site; other site 379731003737 dimerization interface [polypeptide binding]; other site 379731003738 Response regulator receiver domain; Region: Response_reg; pfam00072 379731003739 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731003740 active site 379731003741 phosphorylation site [posttranslational modification] 379731003742 intermolecular recognition site; other site 379731003743 dimerization interface [polypeptide binding]; other site 379731003744 Response regulator receiver domain; Region: Response_reg; pfam00072 379731003745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731003746 active site 379731003747 phosphorylation site [posttranslational modification] 379731003748 intermolecular recognition site; other site 379731003749 dimerization interface [polypeptide binding]; other site 379731003750 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 379731003751 putative active site [active] 379731003752 heme pocket [chemical binding]; other site 379731003753 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731003754 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731003755 metal binding site [ion binding]; metal-binding site 379731003756 active site 379731003757 I-site; other site 379731003758 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 379731003759 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 379731003760 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 379731003761 putative acyl-acceptor binding pocket; other site 379731003762 phosphate acetyltransferase; Reviewed; Region: PRK05632 379731003763 DRTGG domain; Region: DRTGG; pfam07085 379731003764 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 379731003765 propionate/acetate kinase; Provisional; Region: PRK12379 379731003766 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 379731003767 nucleotide binding site [chemical binding]; other site 379731003768 butyrate kinase; Provisional; Region: PRK03011 379731003769 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 379731003770 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 379731003771 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 379731003772 catalytic residues [active] 379731003773 dimer interface [polypeptide binding]; other site 379731003774 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 379731003775 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731003776 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 379731003777 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 379731003778 putative active site [active] 379731003779 putative FMN binding site [chemical binding]; other site 379731003780 putative substrate binding site [chemical binding]; other site 379731003781 putative catalytic residue [active] 379731003782 putative sulfate transport protein CysZ; Validated; Region: PRK04949 379731003783 HopJ type III effector protein; Region: HopJ; pfam08888 379731003784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 379731003785 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 379731003786 homooctamer interface [polypeptide binding]; other site 379731003787 active site 379731003788 dihydromonapterin reductase; Provisional; Region: PRK06483 379731003789 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 379731003790 NADP binding site [chemical binding]; other site 379731003791 substrate binding pocket [chemical binding]; other site 379731003792 active site 379731003793 PilZ domain; Region: PilZ; pfam07238 379731003794 flavodoxin; Provisional; Region: PRK05723 379731003795 aldolase II superfamily protein; Provisional; Region: PRK07044 379731003796 intersubunit interface [polypeptide binding]; other site 379731003797 active site 379731003798 Zn2+ binding site [ion binding]; other site 379731003799 Protein of unknown function, DUF479; Region: DUF479; cl01203 379731003800 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 379731003801 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 379731003802 putative acyl-acceptor binding pocket; other site 379731003803 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 379731003804 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 379731003805 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 379731003806 PLD-like domain; Region: PLDc_2; pfam13091 379731003807 putative active site [active] 379731003808 catalytic site [active] 379731003809 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 379731003810 PLD-like domain; Region: PLDc_2; pfam13091 379731003811 putative active site [active] 379731003812 catalytic site [active] 379731003813 intracellular protease, PfpI family; Region: PfpI; TIGR01382 379731003814 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 379731003815 conserved cys residue [active] 379731003816 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 379731003817 putative fumarate hydratase; Provisional; Region: PRK15392 379731003818 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 379731003819 Fumarase C-terminus; Region: Fumerase_C; pfam05683 379731003820 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731003821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731003822 metal binding site [ion binding]; metal-binding site 379731003823 active site 379731003824 I-site; other site 379731003825 hypothetical protein; Provisional; Region: PRK05713 379731003826 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 379731003827 catalytic loop [active] 379731003828 iron binding site [ion binding]; other site 379731003829 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 379731003830 FAD binding pocket [chemical binding]; other site 379731003831 FAD binding motif [chemical binding]; other site 379731003832 phosphate binding motif [ion binding]; other site 379731003833 beta-alpha-beta structure motif; other site 379731003834 NAD binding pocket [chemical binding]; other site 379731003835 pyruvate kinase; Provisional; Region: PRK05826 379731003836 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 379731003837 domain interfaces; other site 379731003838 active site 379731003839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 379731003840 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 379731003841 PilZ domain; Region: PilZ; pfam07238 379731003842 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 379731003843 Protein of unknown function DUF58; Region: DUF58; pfam01882 379731003844 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 379731003845 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 379731003846 Walker A motif; other site 379731003847 ATP binding site [chemical binding]; other site 379731003848 Walker B motif; other site 379731003849 arginine finger; other site 379731003850 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 379731003851 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 379731003852 RDD family; Region: RDD; pfam06271 379731003853 exonuclease I; Provisional; Region: sbcB; PRK11779 379731003854 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 379731003855 active site 379731003856 catalytic site [active] 379731003857 substrate binding site [chemical binding]; other site 379731003858 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 379731003859 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 379731003860 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 379731003861 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 379731003862 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 379731003863 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 379731003864 putative active site [active] 379731003865 putative NTP binding site [chemical binding]; other site 379731003866 putative nucleic acid binding site [nucleotide binding]; other site 379731003867 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 379731003868 Transposase domain (DUF772); Region: DUF772; pfam05598 379731003869 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 379731003870 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 379731003871 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 379731003872 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 379731003873 putative active site [active] 379731003874 putative substrate binding site [chemical binding]; other site 379731003875 putative cosubstrate binding site; other site 379731003876 catalytic site [active] 379731003877 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 379731003878 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 379731003879 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 379731003880 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 379731003881 Substrate binding site; other site 379731003882 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 379731003883 hypothetical protein; Validated; Region: PRK02101 379731003884 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 379731003885 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 379731003886 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 379731003887 putative active site [active] 379731003888 PhoH-like protein; Region: PhoH; pfam02562 379731003889 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 379731003890 trimer interface [polypeptide binding]; other site 379731003891 dimer interface [polypeptide binding]; other site 379731003892 putative active site [active] 379731003893 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 379731003894 MoaE interaction surface [polypeptide binding]; other site 379731003895 MoeB interaction surface [polypeptide binding]; other site 379731003896 thiocarboxylated glycine; other site 379731003897 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 379731003898 MoaE homodimer interface [polypeptide binding]; other site 379731003899 MoaD interaction [polypeptide binding]; other site 379731003900 active site residues [active] 379731003901 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 379731003902 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 379731003903 ATP binding site [chemical binding]; other site 379731003904 Mg++ binding site [ion binding]; other site 379731003905 motif III; other site 379731003906 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 379731003907 nucleotide binding region [chemical binding]; other site 379731003908 ATP-binding site [chemical binding]; other site 379731003909 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 379731003910 putative hydrolase; Provisional; Region: PRK11460 379731003911 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 379731003912 substrate binding pocket [chemical binding]; other site 379731003913 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 379731003914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731003915 ABC transporter signature motif; other site 379731003916 Walker B; other site 379731003917 D-loop; other site 379731003918 H-loop/switch region; other site 379731003919 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 379731003920 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 379731003921 dimerization interface [polypeptide binding]; other site 379731003922 ATP binding site [chemical binding]; other site 379731003923 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 379731003924 dimerization interface [polypeptide binding]; other site 379731003925 ATP binding site [chemical binding]; other site 379731003926 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 379731003927 putative active site [active] 379731003928 catalytic triad [active] 379731003929 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 379731003930 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 379731003931 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 379731003932 nudix motif; other site 379731003933 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 379731003934 putative active site [active] 379731003935 putative CoA binding site [chemical binding]; other site 379731003936 nudix motif; other site 379731003937 metal binding site [ion binding]; metal-binding site 379731003938 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 379731003939 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 379731003940 trimer interface [polypeptide binding]; other site 379731003941 putative metal binding site [ion binding]; other site 379731003942 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 379731003943 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 379731003944 ATP-grasp domain; Region: ATP-grasp; pfam02222 379731003945 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 379731003946 Domain of unknown function DUF21; Region: DUF21; pfam01595 379731003947 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 379731003948 Transporter associated domain; Region: CorC_HlyC; smart01091 379731003949 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 379731003950 signal recognition particle protein; Provisional; Region: PRK10867 379731003951 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 379731003952 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 379731003953 P loop; other site 379731003954 GTP binding site [chemical binding]; other site 379731003955 Signal peptide binding domain; Region: SRP_SPB; pfam02978 379731003956 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 379731003957 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 379731003958 RimM N-terminal domain; Region: RimM; pfam01782 379731003959 PRC-barrel domain; Region: PRC; pfam05239 379731003960 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 379731003961 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 379731003962 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 379731003963 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 379731003964 active site 379731003965 Int/Topo IB signature motif; other site 379731003966 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 379731003967 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 379731003968 dimerization domain [polypeptide binding]; other site 379731003969 dimer interface [polypeptide binding]; other site 379731003970 catalytic residues [active] 379731003971 Uncharacterized conserved protein [Function unknown]; Region: COG3791 379731003972 homoserine dehydrogenase; Provisional; Region: PRK06349 379731003973 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 379731003974 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 379731003975 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 379731003976 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 379731003977 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 379731003978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731003979 catalytic residue [active] 379731003980 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 379731003981 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 379731003982 dimer interface [polypeptide binding]; other site 379731003983 catalytic site [active] 379731003984 putative active site [active] 379731003985 putative substrate binding site [chemical binding]; other site 379731003986 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 379731003987 active site 379731003988 substrate binding pocket [chemical binding]; other site 379731003989 dimer interface [polypeptide binding]; other site 379731003990 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 379731003991 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731003992 ligand binding site [chemical binding]; other site 379731003993 argininosuccinate synthase; Provisional; Region: PRK13820 379731003994 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 379731003995 ANP binding site [chemical binding]; other site 379731003996 Substrate Binding Site II [chemical binding]; other site 379731003997 Substrate Binding Site I [chemical binding]; other site 379731003998 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 379731003999 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 379731004000 dimer interface [polypeptide binding]; other site 379731004001 active site 379731004002 metal binding site [ion binding]; metal-binding site 379731004003 glutathione binding site [chemical binding]; other site 379731004004 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 379731004005 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 379731004006 minor groove reading motif; other site 379731004007 helix-hairpin-helix signature motif; other site 379731004008 substrate binding pocket [chemical binding]; other site 379731004009 active site 379731004010 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 379731004011 electron transport complex RsxE subunit; Provisional; Region: PRK12405 379731004012 FMN-binding domain; Region: FMN_bind; cl01081 379731004013 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 379731004014 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 379731004015 SLBB domain; Region: SLBB; pfam10531 379731004016 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 379731004017 ferredoxin; Provisional; Region: PRK08764 379731004018 Putative Fe-S cluster; Region: FeS; pfam04060 379731004019 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 379731004020 electron transport complex protein RsxA; Provisional; Region: PRK05151 379731004021 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 379731004022 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 379731004023 substrate binding site [chemical binding]; other site 379731004024 oxyanion hole (OAH) forming residues; other site 379731004025 trimer interface [polypeptide binding]; other site 379731004026 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 379731004027 enoyl-CoA hydratase; Provisional; Region: PRK09076 379731004028 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 379731004029 substrate binding site [chemical binding]; other site 379731004030 oxyanion hole (OAH) forming residues; other site 379731004031 trimer interface [polypeptide binding]; other site 379731004032 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 379731004033 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 379731004034 putative ligand binding site [chemical binding]; other site 379731004035 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 379731004036 ligand binding site [chemical binding]; other site 379731004037 active site 379731004038 UGI interface [polypeptide binding]; other site 379731004039 catalytic site [active] 379731004040 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 379731004041 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 379731004042 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 379731004043 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 379731004044 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 379731004045 Uncharacterized conserved protein [Function unknown]; Region: COG2938 379731004046 L-aspartate oxidase; Provisional; Region: PRK09077 379731004047 L-aspartate oxidase; Provisional; Region: PRK06175 379731004048 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 379731004049 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 379731004050 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 379731004051 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 379731004052 DNA binding residues [nucleotide binding] 379731004053 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 379731004054 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 379731004055 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 379731004056 MucB/RseB family; Region: MucB_RseB; pfam03888 379731004057 anti-sigma E factor; Provisional; Region: rseB; PRK09455 379731004058 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 379731004059 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 379731004060 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 379731004061 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 379731004062 protein binding site [polypeptide binding]; other site 379731004063 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 379731004064 protein binding site [polypeptide binding]; other site 379731004065 GTP-binding protein LepA; Provisional; Region: PRK05433 379731004066 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 379731004067 G1 box; other site 379731004068 putative GEF interaction site [polypeptide binding]; other site 379731004069 GTP/Mg2+ binding site [chemical binding]; other site 379731004070 Switch I region; other site 379731004071 G2 box; other site 379731004072 G3 box; other site 379731004073 Switch II region; other site 379731004074 G4 box; other site 379731004075 G5 box; other site 379731004076 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 379731004077 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 379731004078 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 379731004079 signal peptidase I; Provisional; Region: PRK10861 379731004080 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 379731004081 Catalytic site [active] 379731004082 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 379731004083 ribonuclease III; Reviewed; Region: rnc; PRK00102 379731004084 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 379731004085 dimerization interface [polypeptide binding]; other site 379731004086 active site 379731004087 metal binding site [ion binding]; metal-binding site 379731004088 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 379731004089 GTPase Era; Reviewed; Region: era; PRK00089 379731004090 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 379731004091 G1 box; other site 379731004092 GTP/Mg2+ binding site [chemical binding]; other site 379731004093 Switch I region; other site 379731004094 G2 box; other site 379731004095 Switch II region; other site 379731004096 G3 box; other site 379731004097 G4 box; other site 379731004098 G5 box; other site 379731004099 KH domain; Region: KH_2; pfam07650 379731004100 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 379731004101 Recombination protein O N terminal; Region: RecO_N; pfam11967 379731004102 Recombination protein O C terminal; Region: RecO_C; pfam02565 379731004103 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 379731004104 active site 379731004105 hydrophilic channel; other site 379731004106 dimerization interface [polypeptide binding]; other site 379731004107 catalytic residues [active] 379731004108 active site lid [active] 379731004109 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 379731004110 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731004111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731004112 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 379731004113 dimerization interface [polypeptide binding]; other site 379731004114 Methyltransferase domain; Region: Methyltransf_31; pfam13847 379731004115 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 379731004116 S-adenosylmethionine binding site [chemical binding]; other site 379731004117 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 379731004118 S-adenosylmethionine binding site [chemical binding]; other site 379731004119 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 379731004120 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 379731004121 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 379731004122 Walker A motif; other site 379731004123 ATP binding site [chemical binding]; other site 379731004124 Walker B motif; other site 379731004125 arginine finger; other site 379731004126 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 379731004127 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731004128 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 379731004129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731004130 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 379731004131 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 379731004132 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 379731004133 Glutamate binding site [chemical binding]; other site 379731004134 NAD binding site [chemical binding]; other site 379731004135 catalytic residues [active] 379731004136 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 379731004137 Na binding site [ion binding]; other site 379731004138 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 379731004139 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 379731004140 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 379731004141 N-terminal plug; other site 379731004142 ligand-binding site [chemical binding]; other site 379731004143 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 379731004144 Na binding site [ion binding]; other site 379731004145 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 379731004146 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 379731004147 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 379731004148 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731004149 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 379731004150 dimerization interface [polypeptide binding]; other site 379731004151 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 379731004152 heterodimer interface [polypeptide binding]; other site 379731004153 multimer interface [polypeptide binding]; other site 379731004154 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 379731004155 active site 379731004156 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 379731004157 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 379731004158 heterodimer interface [polypeptide binding]; other site 379731004159 active site 379731004160 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 379731004161 Predicted permeases [General function prediction only]; Region: COG0679 379731004162 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 379731004163 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 379731004164 Bacterial transcriptional regulator; Region: IclR; pfam01614 379731004165 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 379731004166 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 379731004167 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 379731004168 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 379731004169 dimer interface [polypeptide binding]; other site 379731004170 active site 379731004171 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 379731004172 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 379731004173 tetramer interface [polypeptide binding]; other site 379731004174 active site 379731004175 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 379731004176 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 379731004177 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 379731004178 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 379731004179 RNA binding surface [nucleotide binding]; other site 379731004180 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 379731004181 active site 379731004182 uracil binding [chemical binding]; other site 379731004183 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 379731004184 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 379731004185 active site 379731004186 HIGH motif; other site 379731004187 KMSKS motif; other site 379731004188 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 379731004189 anticodon binding site; other site 379731004190 tRNA binding surface [nucleotide binding]; other site 379731004191 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 379731004192 dimer interface [polypeptide binding]; other site 379731004193 putative tRNA-binding site [nucleotide binding]; other site 379731004194 antiporter inner membrane protein; Provisional; Region: PRK11670 379731004195 Domain of unknown function DUF59; Region: DUF59; pfam01883 379731004196 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 379731004197 Walker A motif; other site 379731004198 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 379731004199 DNA-binding site [nucleotide binding]; DNA binding site 379731004200 RNA-binding motif; other site 379731004201 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 379731004202 trimer interface [polypeptide binding]; other site 379731004203 active site 379731004204 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 379731004205 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 379731004206 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 379731004207 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 379731004208 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 379731004209 [4Fe-4S] binding site [ion binding]; other site 379731004210 molybdopterin cofactor binding site; other site 379731004211 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 379731004212 molybdopterin cofactor binding site; other site 379731004213 NapD protein; Region: NapD; pfam03927 379731004214 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 379731004215 hypothetical protein; Provisional; Region: PRK04860 379731004216 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 379731004217 Yip1 domain; Region: Yip1; pfam04893 379731004218 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 379731004219 DNA-J related protein; Region: DNAJ_related; pfam12339 379731004220 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 379731004221 HSP70 interaction site [polypeptide binding]; other site 379731004222 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 379731004223 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 379731004224 Ligand Binding Site [chemical binding]; other site 379731004225 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 379731004226 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 379731004227 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 379731004228 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 379731004229 AZL_007950 family protein; Region: AZL_007950_fam; TIGR04061 379731004230 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 379731004231 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 379731004232 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 379731004233 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 379731004234 NAD-dependent deacetylase; Provisional; Region: PRK00481 379731004235 SIR2 family 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-fam; cd01407 379731004236 NAD+ binding site [chemical binding]; other site 379731004237 substrate binding site [chemical binding]; other site 379731004238 Zn binding site [ion binding]; other site 379731004239 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 379731004240 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 379731004241 NlpC/P60 family; Region: NLPC_P60; pfam00877 379731004242 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 379731004243 NlpC/P60 family; Region: NLPC_P60; pfam00877 379731004244 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 379731004245 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 379731004246 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 379731004247 putative active site [active] 379731004248 putative metal binding site [ion binding]; other site 379731004249 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 379731004250 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 379731004251 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 379731004252 N-terminal plug; other site 379731004253 ligand-binding site [chemical binding]; other site 379731004254 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 379731004255 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 379731004256 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 379731004257 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 379731004258 Walker A motif; other site 379731004259 homodimer interface [polypeptide binding]; other site 379731004260 ATP binding site [chemical binding]; other site 379731004261 hydroxycobalamin binding site [chemical binding]; other site 379731004262 Walker B motif; other site 379731004263 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 379731004264 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; cd01983 379731004265 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 379731004266 catalytic triad [active] 379731004267 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 379731004268 putative FMN binding site [chemical binding]; other site 379731004269 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 379731004270 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 379731004271 cobalamin binding residues [chemical binding]; other site 379731004272 putative BtuC binding residues; other site 379731004273 dimer interface [polypeptide binding]; other site 379731004274 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 379731004275 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 379731004276 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 379731004277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731004278 homodimer interface [polypeptide binding]; other site 379731004279 catalytic residue [active] 379731004280 cobyric acid synthase; Provisional; Region: PRK00784 379731004281 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 379731004282 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 379731004283 catalytic triad [active] 379731004284 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 379731004285 homotrimer interface [polypeptide binding]; other site 379731004286 Walker A motif; other site 379731004287 GTP binding site [chemical binding]; other site 379731004288 Walker B motif; other site 379731004289 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 379731004290 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 379731004291 putative dimer interface [polypeptide binding]; other site 379731004292 active site pocket [active] 379731004293 putative cataytic base [active] 379731004294 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 379731004295 catalytic core [active] 379731004296 cobalamin synthase; Reviewed; Region: cobS; PRK00235 379731004297 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 379731004298 putative GSH binding site [chemical binding]; other site 379731004299 catalytic residues [active] 379731004300 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 379731004301 active site residue [active] 379731004302 NifQ; Region: NifQ; pfam04891 379731004303 Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also...; Region: ArsC_15kD; cd03033 379731004304 putative catalytic residues [active] 379731004305 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 379731004306 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 379731004307 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 379731004308 FeS/SAM binding site; other site 379731004309 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 379731004310 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 379731004311 dimer interface [polypeptide binding]; other site 379731004312 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731004313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731004314 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 379731004315 putative effector binding pocket; other site 379731004316 putative dimerization interface [polypeptide binding]; other site 379731004317 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 379731004318 homotrimer interaction site [polypeptide binding]; other site 379731004319 putative active site [active] 379731004320 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 379731004321 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 379731004322 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731004323 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731004324 putative substrate translocation pore; other site 379731004325 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 379731004326 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 379731004327 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 379731004328 S-adenosylmethionine binding site [chemical binding]; other site 379731004329 Nif-specific regulatory protein; Region: nifA; TIGR01817 379731004330 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 379731004331 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 379731004332 Walker A motif; other site 379731004333 ATP binding site [chemical binding]; other site 379731004334 Walker B motif; other site 379731004335 arginine finger; other site 379731004336 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 379731004337 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 379731004338 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 379731004339 putative active site [active] 379731004340 heme pocket [chemical binding]; other site 379731004341 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 379731004342 ATP binding site [chemical binding]; other site 379731004343 Mg2+ binding site [ion binding]; other site 379731004344 G-X-G motif; other site 379731004345 electron transport complex protein RsxA; Provisional; Region: PRK05151 379731004346 ferredoxin; Provisional; Region: PRK08764 379731004347 Putative Fe-S cluster; Region: FeS; cl17515 379731004348 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 379731004349 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 379731004350 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 379731004351 SLBB domain; Region: SLBB; pfam10531 379731004352 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 379731004353 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 379731004354 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 379731004355 electron transport complex RsxE subunit; Provisional; Region: PRK12405 379731004356 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 379731004357 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 379731004358 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 379731004359 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 379731004360 nitrogenase iron protein; Region: nifH; TIGR01287 379731004361 Nucleotide-binding sites [chemical binding]; other site 379731004362 Walker A motif; other site 379731004363 Switch I region of nucleotide binding site; other site 379731004364 Fe4S4 binding sites [ion binding]; other site 379731004365 Switch II region of nucleotide binding site; other site 379731004366 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 379731004367 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 379731004368 MoFe protein alpha/beta subunit interactions; other site 379731004369 Alpha subunit P cluster binding residues; other site 379731004370 FeMoco binding residues [chemical binding]; other site 379731004371 MoFe protein alpha subunit/Fe protein contacts; other site 379731004372 MoFe protein dimer/ dimer interactions; other site 379731004373 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 379731004374 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 379731004375 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 379731004376 MoFe protein beta/alpha subunit interactions; other site 379731004377 Beta subunit P cluster binding residues; other site 379731004378 MoFe protein beta subunit/Fe protein contacts; other site 379731004379 MoFe protein dimer/ dimer interactions; other site 379731004380 NifT/FixU protein; Region: NifT; pfam06988 379731004381 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 379731004382 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 379731004383 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 379731004384 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 379731004385 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 379731004386 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 379731004387 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 379731004388 probable nitrogen fixation protein; Region: TIGR02935 379731004389 Rop-like; Region: Rop-like; pfam05082 379731004390 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 379731004391 4Fe-4S binding domain; Region: Fer4; cl02805 379731004392 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 379731004393 dimer interface [polypeptide binding]; other site 379731004394 [2Fe-2S] cluster binding site [ion binding]; other site 379731004395 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 379731004396 Domain of unknown function (DUF364); Region: DUF364; pfam04016 379731004397 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 379731004398 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 379731004399 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731004400 Walker A/P-loop; other site 379731004401 ATP binding site [chemical binding]; other site 379731004402 Q-loop/lid; other site 379731004403 ABC transporter signature motif; other site 379731004404 Walker B; other site 379731004405 D-loop; other site 379731004406 H-loop/switch region; other site 379731004407 TOBE domain; Region: TOBE; cl01440 379731004408 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731004409 putative PBP binding loops; other site 379731004410 dimer interface [polypeptide binding]; other site 379731004411 ABC-ATPase subunit interface; other site 379731004412 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 379731004413 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 379731004414 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 379731004415 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 379731004416 molybdenum-pterin binding domain; Region: Mop; TIGR00638 379731004417 molybdenum-pterin binding domain; Region: Mop; TIGR00638 379731004418 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 379731004419 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 379731004420 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 379731004421 trimerization site [polypeptide binding]; other site 379731004422 active site 379731004423 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 379731004424 NifU-like domain; Region: NifU; pfam01106 379731004425 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 379731004426 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 379731004427 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 379731004428 catalytic residue [active] 379731004429 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 379731004430 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 379731004431 active site 379731004432 catalytic residues [active] 379731004433 metal binding site [ion binding]; metal-binding site 379731004434 serine O-acetyltransferase; Region: cysE; TIGR01172 379731004435 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 379731004436 trimer interface [polypeptide binding]; other site 379731004437 active site 379731004438 substrate binding site [chemical binding]; other site 379731004439 CoA binding site [chemical binding]; other site 379731004440 Nitrogen fixation protein NifW; Region: NifW; pfam03206 379731004441 NifZ domain; Region: NifZ; pfam04319 379731004442 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 379731004443 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 379731004444 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 379731004445 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 379731004446 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 379731004447 Walker A motif; other site 379731004448 ATP binding site [chemical binding]; other site 379731004449 Walker B motif; other site 379731004450 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 379731004451 flavodoxin FldA; Validated; Region: PRK09267 379731004452 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 379731004453 catalytic residues [active] 379731004454 dimer interface [polypeptide binding]; other site 379731004455 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 379731004456 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 379731004457 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 379731004458 active site residue [active] 379731004459 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 379731004460 active site residue [active] 379731004461 ribonuclease D; Region: rnd; TIGR01388 379731004462 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 379731004463 catalytic site [active] 379731004464 putative active site [active] 379731004465 putative substrate binding site [chemical binding]; other site 379731004466 HRDC domain; Region: HRDC; pfam00570 379731004467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 379731004468 hypothetical protein; Provisional; Region: PRK05170 379731004469 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 379731004470 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 379731004471 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 379731004472 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 379731004473 tetramer interface [polypeptide binding]; other site 379731004474 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731004475 catalytic residue [active] 379731004476 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 379731004477 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 379731004478 motif 1; other site 379731004479 active site 379731004480 motif 2; other site 379731004481 motif 3; other site 379731004482 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 379731004483 DHHA1 domain; Region: DHHA1; pfam02272 379731004484 aspartate kinase; Reviewed; Region: PRK06635 379731004485 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 379731004486 putative nucleotide binding site [chemical binding]; other site 379731004487 putative catalytic residues [active] 379731004488 putative Mg ion binding site [ion binding]; other site 379731004489 putative aspartate binding site [chemical binding]; other site 379731004490 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 379731004491 putative allosteric regulatory site; other site 379731004492 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 379731004493 putative allosteric regulatory residue; other site 379731004494 carbon storage regulator; Provisional; Region: PRK01712 379731004495 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 379731004496 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 379731004497 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 379731004498 MgtE intracellular N domain; Region: MgtE_N; smart00924 379731004499 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 379731004500 Divalent cation transporter; Region: MgtE; cl00786 379731004501 oxaloacetate decarboxylase; Provisional; Region: PRK14040 379731004502 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 379731004503 active site 379731004504 catalytic residues [active] 379731004505 metal binding site [ion binding]; metal-binding site 379731004506 homodimer binding site [polypeptide binding]; other site 379731004507 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 379731004508 carboxyltransferase (CT) interaction site; other site 379731004509 biotinylation site [posttranslational modification]; other site 379731004510 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 379731004511 Arc-like DNA binding domain; Region: Arc; pfam03869 379731004512 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 379731004513 PilZ domain; Region: PilZ; pfam07238 379731004514 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 379731004515 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 379731004516 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 379731004517 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 379731004518 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731004519 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731004520 active site 379731004521 phosphorylation site [posttranslational modification] 379731004522 intermolecular recognition site; other site 379731004523 dimerization interface [polypeptide binding]; other site 379731004524 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 379731004525 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 379731004526 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 379731004527 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 379731004528 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 379731004529 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 379731004530 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 379731004531 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 379731004532 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 379731004533 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 379731004534 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 379731004535 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 379731004536 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 379731004537 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 379731004538 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 379731004539 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 379731004540 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 379731004541 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 379731004542 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 379731004543 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 379731004544 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 379731004545 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 379731004546 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 379731004547 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 379731004548 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 379731004549 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 379731004550 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 379731004551 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 379731004552 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 379731004553 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 379731004554 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 379731004555 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 379731004556 AAA domain; Region: AAA_18; pfam13238 379731004557 ligand-binding site [chemical binding]; other site 379731004558 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 379731004559 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 379731004560 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 379731004561 putative ligand binding site [chemical binding]; other site 379731004562 putative catalytic site [active] 379731004563 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 379731004564 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 379731004565 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 379731004566 Probable Catalytic site; other site 379731004567 metal-binding site 379731004568 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 379731004569 flagellin; Provisional; Region: PRK12806 379731004570 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 379731004571 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 379731004572 FlaG protein; Region: FlaG; pfam03646 379731004573 flagellar capping protein; Reviewed; Region: fliD; PRK08032 379731004574 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 379731004575 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 379731004576 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 379731004577 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 379731004578 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 379731004579 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 379731004580 non-specific DNA binding site [nucleotide binding]; other site 379731004581 salt bridge; other site 379731004582 sequence-specific DNA binding site [nucleotide binding]; other site 379731004583 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 379731004584 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 379731004585 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731004586 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731004587 metal binding site [ion binding]; metal-binding site 379731004588 active site 379731004589 I-site; other site 379731004590 carboxy-terminal protease; Provisional; Region: PRK11186 379731004591 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 379731004592 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 379731004593 protein binding site [polypeptide binding]; other site 379731004594 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 379731004595 Catalytic dyad [active] 379731004596 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 379731004597 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 379731004598 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 379731004599 NAD(P) binding site [chemical binding]; other site 379731004600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 379731004601 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 379731004602 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 379731004603 Uncharacterized conserved protein [Function unknown]; Region: COG2361 379731004604 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 379731004605 active site 379731004606 NTP binding site [chemical binding]; other site 379731004607 metal binding triad [ion binding]; metal-binding site 379731004608 antibiotic binding site [chemical binding]; other site 379731004609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 379731004610 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 379731004611 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 379731004612 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 379731004613 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 379731004614 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 379731004615 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 379731004616 active site 379731004617 metal binding site [ion binding]; metal-binding site 379731004618 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 379731004619 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 379731004620 active site 379731004621 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 379731004622 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 379731004623 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 379731004624 Switch II; other site 379731004625 septum formation inhibitor; Reviewed; Region: minC; PRK00339 379731004626 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 379731004627 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 379731004628 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 379731004629 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 379731004630 putative acyl-acceptor binding pocket; other site 379731004631 Pirin-related protein [General function prediction only]; Region: COG1741 379731004632 Pirin; Region: Pirin; pfam02678 379731004633 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 379731004634 VacJ like lipoprotein; Region: VacJ; cl01073 379731004635 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 379731004636 Predicted membrane protein [Function unknown]; Region: COG3162 379731004637 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 379731004638 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 379731004639 Na binding site [ion binding]; other site 379731004640 short chain dehydrogenase; Provisional; Region: PRK05650 379731004641 classical (c) SDRs; Region: SDR_c; cd05233 379731004642 NAD(P) binding site [chemical binding]; other site 379731004643 active site 379731004644 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 379731004645 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731004646 putative substrate translocation pore; other site 379731004647 hypothetical protein; Provisional; Region: PRK00304 379731004648 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 379731004649 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 379731004650 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 379731004651 dimer interface [polypeptide binding]; other site 379731004652 phosphorylation site [posttranslational modification] 379731004653 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 379731004654 ATP binding site [chemical binding]; other site 379731004655 Mg2+ binding site [ion binding]; other site 379731004656 G-X-G motif; other site 379731004657 Response regulator receiver domain; Region: Response_reg; pfam00072 379731004658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731004659 active site 379731004660 phosphorylation site [posttranslational modification] 379731004661 intermolecular recognition site; other site 379731004662 dimerization interface [polypeptide binding]; other site 379731004663 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 379731004664 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 379731004665 putative oligomer interface [polypeptide binding]; other site 379731004666 putative active site [active] 379731004667 metal binding site [ion binding]; metal-binding site 379731004668 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 379731004669 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 379731004670 Coenzyme A binding pocket [chemical binding]; other site 379731004671 ATP-grasp domain; Region: ATP-grasp_4; cl17255 379731004672 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 379731004673 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 379731004674 active site 379731004675 dimer interface [polypeptide binding]; other site 379731004676 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 379731004677 Ligand Binding Site [chemical binding]; other site 379731004678 Molecular Tunnel; other site 379731004679 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; cl17220 379731004680 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 379731004681 active site 379731004682 catalytic residues [active] 379731004683 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 379731004684 Methyltransferase domain; Region: Methyltransf_25; pfam13649 379731004685 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 379731004686 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 379731004687 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 379731004688 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 379731004689 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 379731004690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731004691 NAD(P) binding site [chemical binding]; other site 379731004692 active site 379731004693 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 379731004694 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 379731004695 ATP binding site [chemical binding]; other site 379731004696 putative Mg++ binding site [ion binding]; other site 379731004697 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 379731004698 nucleotide binding region [chemical binding]; other site 379731004699 ATP-binding site [chemical binding]; other site 379731004700 DEAD/H associated; Region: DEAD_assoc; pfam08494 379731004701 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 379731004702 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 379731004703 RNA binding surface [nucleotide binding]; other site 379731004704 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 379731004705 active site 379731004706 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 379731004707 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 379731004708 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 379731004709 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 379731004710 Trp docking motif [polypeptide binding]; other site 379731004711 putative active site [active] 379731004712 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 379731004713 S1 domain; Region: S1_2; pfam13509 379731004714 S1 domain; Region: S1_2; pfam13509 379731004715 Protein of unknown function, DUF488; Region: DUF488; pfam04343 379731004716 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 379731004717 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 379731004718 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 379731004719 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 379731004720 Peptidase M15; Region: Peptidase_M15_3; cl01194 379731004721 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 379731004722 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 379731004723 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 379731004724 ATP binding site [chemical binding]; other site 379731004725 putative Mg++ binding site [ion binding]; other site 379731004726 HNH endonuclease; Region: HNH_2; pfam13391 379731004727 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 379731004728 Methyltransferase domain; Region: Methyltransf_26; pfam13659 379731004729 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 379731004730 Fic/DOC family; Region: Fic; cl00960 379731004731 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 379731004732 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 379731004733 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 379731004734 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 379731004735 Protein of unknown function DUF91; Region: DUF91; cl00709 379731004736 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 379731004737 Di-sulfide bridge nucleocytoplasmic transport domain; Region: Brr6_like_C_C; cl12377 379731004738 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731004739 ligand binding site [chemical binding]; other site 379731004740 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 379731004741 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 379731004742 Walker A motif; other site 379731004743 ATP binding site [chemical binding]; other site 379731004744 Walker B motif; other site 379731004745 arginine finger; other site 379731004746 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731004747 Integrase core domain; Region: rve; pfam00665 379731004748 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731004749 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 379731004750 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 379731004751 ATP binding site [chemical binding]; other site 379731004752 putative Mg++ binding site [ion binding]; other site 379731004753 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 379731004754 nucleotide binding region [chemical binding]; other site 379731004755 ATP-binding site [chemical binding]; other site 379731004756 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 379731004757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 379731004758 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 379731004759 active site 379731004760 metal binding site [ion binding]; metal-binding site 379731004761 interdomain interaction site; other site 379731004762 putative transposase OrfB; Reviewed; Region: PHA02517 379731004763 HTH-like domain; Region: HTH_21; pfam13276 379731004764 Integrase core domain; Region: rve; pfam00665 379731004765 Integrase core domain; Region: rve_2; pfam13333 379731004766 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 379731004767 Transposase; Region: HTH_Tnp_1; pfam01527 379731004768 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 379731004769 active site 379731004770 DNA binding site [nucleotide binding] 379731004771 Int/Topo IB signature motif; other site 379731004772 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 379731004773 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731004774 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 379731004775 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 379731004776 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 379731004777 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731004778 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731004779 metal binding site [ion binding]; metal-binding site 379731004780 active site 379731004781 I-site; other site 379731004782 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 379731004783 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 379731004784 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 379731004785 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 379731004786 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 379731004787 Predicted deacetylase [General function prediction only]; Region: COG3233 379731004788 putative active site [active] 379731004789 putative Zn binding site [ion binding]; other site 379731004790 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 379731004791 CsbD-like; Region: CsbD; pfam05532 379731004792 Ferredoxin [Energy production and conversion]; Region: COG1146 379731004793 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 379731004794 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 379731004795 MutS domain I; Region: MutS_I; pfam01624 379731004796 MutS domain II; Region: MutS_II; pfam05188 379731004797 MutS domain III; Region: MutS_III; pfam05192 379731004798 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 379731004799 Walker A/P-loop; other site 379731004800 ATP binding site [chemical binding]; other site 379731004801 Q-loop/lid; other site 379731004802 ABC transporter signature motif; other site 379731004803 Walker B; other site 379731004804 D-loop; other site 379731004805 H-loop/switch region; other site 379731004806 Acyltransferase family; Region: Acyl_transf_3; pfam01757 379731004807 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 379731004808 recombinase A; Provisional; Region: recA; PRK09354 379731004809 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 379731004810 hexamer interface [polypeptide binding]; other site 379731004811 Walker A motif; other site 379731004812 ATP binding site [chemical binding]; other site 379731004813 Walker B motif; other site 379731004814 recombination regulator RecX; Reviewed; Region: recX; PRK00117 379731004815 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 379731004816 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 379731004817 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 379731004818 Beta-Casp domain; Region: Beta-Casp; smart01027 379731004819 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 379731004820 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 379731004821 XFP N-terminal domain; Region: XFP_N; pfam09364 379731004822 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 379731004823 Uncharacterized conserved protein [Function unknown]; Region: COG3148 379731004824 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 379731004825 EamA-like transporter family; Region: EamA; pfam00892 379731004826 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731004827 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 379731004828 active site 379731004829 phosphorylation site [posttranslational modification] 379731004830 intermolecular recognition site; other site 379731004831 dimerization interface [polypeptide binding]; other site 379731004832 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 379731004833 DNA binding residues [nucleotide binding] 379731004834 dimerization interface [polypeptide binding]; other site 379731004835 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 379731004836 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731004837 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 379731004838 putative dimerization interface [polypeptide binding]; other site 379731004839 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 379731004840 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 379731004841 FAD binding pocket [chemical binding]; other site 379731004842 FAD binding motif [chemical binding]; other site 379731004843 phosphate binding motif [ion binding]; other site 379731004844 beta-alpha-beta structure motif; other site 379731004845 NAD binding pocket [chemical binding]; other site 379731004846 hypothetical protein; Provisional; Region: PRK00183 379731004847 SEC-C motif; Region: SEC-C; pfam02810 379731004848 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 379731004849 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731004850 ligand binding site [chemical binding]; other site 379731004851 Predicted integral membrane protein [Function unknown]; Region: COG5615 379731004852 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 379731004853 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 379731004854 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 379731004855 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 379731004856 Beta-lactamase; Region: Beta-lactamase; pfam00144 379731004857 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 379731004858 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731004859 ligand binding site [chemical binding]; other site 379731004860 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 379731004861 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 379731004862 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 379731004863 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 379731004864 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 379731004865 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 379731004866 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 379731004867 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 379731004868 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 379731004869 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 379731004870 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 379731004871 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 379731004872 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 379731004873 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 379731004874 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 379731004875 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 379731004876 metal binding triad; other site 379731004877 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 379731004878 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 379731004879 Zn2+ binding site [ion binding]; other site 379731004880 Mg2+ binding site [ion binding]; other site 379731004881 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 379731004882 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 379731004883 methionine aminopeptidase; Provisional; Region: PRK08671 379731004884 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 379731004885 active site 379731004886 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 379731004887 rRNA interaction site [nucleotide binding]; other site 379731004888 S8 interaction site; other site 379731004889 putative laminin-1 binding site; other site 379731004890 elongation factor Ts; Provisional; Region: tsf; PRK09377 379731004891 UBA/TS-N domain; Region: UBA; pfam00627 379731004892 Elongation factor TS; Region: EF_TS; pfam00889 379731004893 Elongation factor TS; Region: EF_TS; pfam00889 379731004894 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 379731004895 putative nucleotide binding site [chemical binding]; other site 379731004896 uridine monophosphate binding site [chemical binding]; other site 379731004897 homohexameric interface [polypeptide binding]; other site 379731004898 ribosome recycling factor; Reviewed; Region: frr; PRK00083 379731004899 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 379731004900 hinge region; other site 379731004901 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 379731004902 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 379731004903 catalytic residue [active] 379731004904 putative FPP diphosphate binding site; other site 379731004905 putative FPP binding hydrophobic cleft; other site 379731004906 dimer interface [polypeptide binding]; other site 379731004907 putative IPP diphosphate binding site; other site 379731004908 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 379731004909 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 379731004910 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 379731004911 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 379731004912 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 379731004913 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 379731004914 zinc metallopeptidase RseP; Provisional; Region: PRK10779 379731004915 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 379731004916 active site 379731004917 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 379731004918 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 379731004919 protein binding site [polypeptide binding]; other site 379731004920 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 379731004921 putative substrate binding region [chemical binding]; other site 379731004922 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 379731004923 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 379731004924 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 379731004925 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 379731004926 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 379731004927 Surface antigen; Region: Bac_surface_Ag; pfam01103 379731004928 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 379731004929 periplasmic chaperone; Provisional; Region: PRK10780 379731004930 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 379731004931 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 379731004932 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 379731004933 trimer interface [polypeptide binding]; other site 379731004934 active site 379731004935 UDP-GlcNAc binding site [chemical binding]; other site 379731004936 lipid binding site [chemical binding]; lipid-binding site 379731004937 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 379731004938 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 379731004939 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 379731004940 active site 379731004941 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 379731004942 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 379731004943 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 379731004944 RNA/DNA hybrid binding site [nucleotide binding]; other site 379731004945 active site 379731004946 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 379731004947 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 379731004948 putative PHP Thumb interface [polypeptide binding]; other site 379731004949 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 379731004950 generic binding surface II; other site 379731004951 generic binding surface I; other site 379731004952 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 379731004953 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 379731004954 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 379731004955 TilS substrate binding domain; Region: TilS; pfam09179 379731004956 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 379731004957 CTP synthetase; Validated; Region: pyrG; PRK05380 379731004958 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 379731004959 Catalytic site [active] 379731004960 active site 379731004961 UTP binding site [chemical binding]; other site 379731004962 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 379731004963 active site 379731004964 putative oxyanion hole; other site 379731004965 catalytic triad [active] 379731004966 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 379731004967 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 379731004968 enolase; Provisional; Region: eno; PRK00077 379731004969 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 379731004970 dimer interface [polypeptide binding]; other site 379731004971 metal binding site [ion binding]; metal-binding site 379731004972 substrate binding pocket [chemical binding]; other site 379731004973 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 379731004974 Septum formation initiator; Region: DivIC; cl17659 379731004975 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 379731004976 substrate binding site; other site 379731004977 dimer interface; other site 379731004978 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 379731004979 30S subunit binding site; other site 379731004980 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731004981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731004982 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 379731004983 putative effector binding pocket; other site 379731004984 putative dimerization interface [polypeptide binding]; other site 379731004985 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 379731004986 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 379731004987 substrate binding site [chemical binding]; other site 379731004988 catalytic Zn binding site [ion binding]; other site 379731004989 NAD binding site [chemical binding]; other site 379731004990 structural Zn binding site [ion binding]; other site 379731004991 dimer interface [polypeptide binding]; other site 379731004992 S-formylglutathione hydrolase; Region: PLN02442 379731004993 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 379731004994 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 379731004995 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 379731004996 FMN binding site [chemical binding]; other site 379731004997 active site 379731004998 substrate binding site [chemical binding]; other site 379731004999 catalytic residue [active] 379731005000 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 379731005001 homotrimer interaction site [polypeptide binding]; other site 379731005002 zinc binding site [ion binding]; other site 379731005003 CDP-binding sites; other site 379731005004 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 379731005005 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 379731005006 Permutation of conserved domain; other site 379731005007 active site 379731005008 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 379731005009 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 379731005010 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 379731005011 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 379731005012 S-adenosylmethionine binding site [chemical binding]; other site 379731005013 Domain of unknown function (DUF368); Region: DUF368; pfam04018 379731005014 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 379731005015 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 379731005016 Peptidase family M23; Region: Peptidase_M23; pfam01551 379731005017 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 379731005018 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 379731005019 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 379731005020 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 379731005021 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 379731005022 DNA binding residues [nucleotide binding] 379731005023 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 379731005024 Coenzyme A binding pocket [chemical binding]; other site 379731005025 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 379731005026 nudix motif; other site 379731005027 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 379731005028 Na binding site [ion binding]; other site 379731005029 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 379731005030 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 379731005031 active site 379731005032 dimerization interface [polypeptide binding]; other site 379731005033 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 379731005034 heme-binding site [chemical binding]; other site 379731005035 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 379731005036 Ligand Binding Site [chemical binding]; other site 379731005037 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 379731005038 active site 379731005039 hypothetical protein; Provisional; Region: PRK12378 379731005040 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 379731005041 Helix-turn-helix domain; Region: HTH_38; pfam13936 379731005042 Integrase core domain; Region: rve; pfam00665 379731005043 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 379731005044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 379731005045 MOSC domain; Region: MOSC; pfam03473 379731005046 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 379731005047 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 379731005048 Zn2+ binding site [ion binding]; other site 379731005049 Mg2+ binding site [ion binding]; other site 379731005050 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 379731005051 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 379731005052 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 379731005053 putative ligand binding site [chemical binding]; other site 379731005054 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 379731005055 NAD binding site [chemical binding]; other site 379731005056 dimerization interface [polypeptide binding]; other site 379731005057 catalytic site [active] 379731005058 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 379731005059 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 379731005060 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 379731005061 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 379731005062 active site 379731005063 dimerization interface [polypeptide binding]; other site 379731005064 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 379731005065 30S subunit binding site; other site 379731005066 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 379731005067 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 379731005068 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 379731005069 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731005070 dimer interface [polypeptide binding]; other site 379731005071 putative CheW interface [polypeptide binding]; other site 379731005072 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 379731005073 PBP superfamily domain; Region: PBP_like_2; cl17296 379731005074 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 379731005075 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 379731005076 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 379731005077 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 379731005078 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 379731005079 putative DNA binding site [nucleotide binding]; other site 379731005080 putative Zn2+ binding site [ion binding]; other site 379731005081 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 379731005082 glycerol kinase; Provisional; Region: glpK; PRK00047 379731005083 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 379731005084 N- and C-terminal domain interface [polypeptide binding]; other site 379731005085 active site 379731005086 MgATP binding site [chemical binding]; other site 379731005087 catalytic site [active] 379731005088 metal binding site [ion binding]; metal-binding site 379731005089 glycerol binding site [chemical binding]; other site 379731005090 homotetramer interface [polypeptide binding]; other site 379731005091 homodimer interface [polypeptide binding]; other site 379731005092 FBP binding site [chemical binding]; other site 379731005093 protein IIAGlc interface [polypeptide binding]; other site 379731005094 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 379731005095 amphipathic channel; other site 379731005096 Asn-Pro-Ala signature motifs; other site 379731005097 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 379731005098 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 379731005099 ATP binding site [chemical binding]; other site 379731005100 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 379731005101 putative Mg++ binding site [ion binding]; other site 379731005102 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 379731005103 nucleotide binding region [chemical binding]; other site 379731005104 ATP-binding site [chemical binding]; other site 379731005105 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 379731005106 Ion transport protein; Region: Ion_trans; pfam00520 379731005107 Ion channel; Region: Ion_trans_2; pfam07885 379731005108 Protein of unknown function DUF72; Region: DUF72; pfam01904 379731005109 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 379731005110 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 379731005111 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 379731005112 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 379731005113 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_3; cd06151 379731005114 homotrimer interaction site [polypeptide binding]; other site 379731005115 putative active site [active] 379731005116 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731005117 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731005118 putative substrate translocation pore; other site 379731005119 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 379731005120 Peptidase family U32; Region: Peptidase_U32; pfam01136 379731005121 Collagenase; Region: DUF3656; pfam12392 379731005122 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 379731005123 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 379731005124 DNA binding residues [nucleotide binding] 379731005125 putative dimer interface [polypeptide binding]; other site 379731005126 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 379731005127 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 379731005128 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 379731005129 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 379731005130 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 379731005131 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 379731005132 metal binding site [ion binding]; metal-binding site 379731005133 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 379731005134 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 379731005135 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 379731005136 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 379731005137 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 379731005138 DNA binding residues [nucleotide binding] 379731005139 dimer interface [polypeptide binding]; other site 379731005140 putative metal binding site [ion binding]; other site 379731005141 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 379731005142 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 379731005143 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 379731005144 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 379731005145 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731005146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731005147 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 379731005148 putative substrate binding pocket [chemical binding]; other site 379731005149 putative dimerization interface [polypeptide binding]; other site 379731005150 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 379731005151 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 379731005152 Flagellar L-ring protein; Region: FlgH; cl17277 379731005153 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 379731005154 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 379731005155 dimer interface [polypeptide binding]; other site 379731005156 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 379731005157 active site 379731005158 heme binding site [chemical binding]; other site 379731005159 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 379731005160 Methyltransferase domain; Region: Methyltransf_25; pfam13649 379731005161 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 379731005162 Coenzyme A binding pocket [chemical binding]; other site 379731005163 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 379731005164 dimerization interface [polypeptide binding]; other site 379731005165 substrate binding pocket [chemical binding]; other site 379731005166 Restriction endonuclease; Region: Mrr_cat; pfam04471 379731005167 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 379731005168 type III secretion system protein SpaS; Validated; Region: PRK08156 379731005169 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 379731005170 dimer interface [polypeptide binding]; other site 379731005171 putative radical transfer pathway; other site 379731005172 diiron center [ion binding]; other site 379731005173 tyrosyl radical; other site 379731005174 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 379731005175 ATP cone domain; Region: ATP-cone; pfam03477 379731005176 ATP cone domain; Region: ATP-cone; pfam03477 379731005177 Class I ribonucleotide reductase; Region: RNR_I; cd01679 379731005178 active site 379731005179 dimer interface [polypeptide binding]; other site 379731005180 catalytic residues [active] 379731005181 effector binding site; other site 379731005182 R2 peptide binding site; other site 379731005183 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 379731005184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731005185 active site 379731005186 phosphorylation site [posttranslational modification] 379731005187 intermolecular recognition site; other site 379731005188 dimerization interface [polypeptide binding]; other site 379731005189 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 379731005190 DNA binding site [nucleotide binding] 379731005191 sensor protein RstB; Provisional; Region: PRK10604 379731005192 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 379731005193 dimerization interface [polypeptide binding]; other site 379731005194 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 379731005195 dimer interface [polypeptide binding]; other site 379731005196 phosphorylation site [posttranslational modification] 379731005197 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 379731005198 ATP binding site [chemical binding]; other site 379731005199 Mg2+ binding site [ion binding]; other site 379731005200 G-X-G motif; other site 379731005201 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 379731005202 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 379731005203 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 379731005204 active site 379731005205 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 379731005206 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 379731005207 Mechanosensitive ion channel; Region: MS_channel; pfam00924 379731005208 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 379731005209 active site residue [active] 379731005210 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 379731005211 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 379731005212 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 379731005213 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 379731005214 Zn2+ binding site [ion binding]; other site 379731005215 Mg2+ binding site [ion binding]; other site 379731005216 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 379731005217 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 379731005218 substrate binding site [chemical binding]; other site 379731005219 oxyanion hole (OAH) forming residues; other site 379731005220 trimer interface [polypeptide binding]; other site 379731005221 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 379731005222 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 379731005223 inhibitor-cofactor binding pocket; inhibition site 379731005224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731005225 catalytic residue [active] 379731005226 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 379731005227 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 379731005228 putative active site [active] 379731005229 Zn binding site [ion binding]; other site 379731005230 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731005231 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 379731005232 Walker A/P-loop; other site 379731005233 ATP binding site [chemical binding]; other site 379731005234 Q-loop/lid; other site 379731005235 ABC transporter signature motif; other site 379731005236 Walker B; other site 379731005237 D-loop; other site 379731005238 H-loop/switch region; other site 379731005239 inner membrane transport permease; Provisional; Region: PRK15066 379731005240 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 379731005241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 379731005242 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 379731005243 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 379731005244 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 379731005245 VacJ like lipoprotein; Region: VacJ; cl01073 379731005246 PilZ domain; Region: PilZ; pfam07238 379731005247 Response regulator receiver domain; Region: Response_reg; pfam00072 379731005248 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731005249 active site 379731005250 phosphorylation site [posttranslational modification] 379731005251 intermolecular recognition site; other site 379731005252 dimerization interface [polypeptide binding]; other site 379731005253 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 379731005254 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 379731005255 anti sigma factor interaction site; other site 379731005256 regulatory phosphorylation site [posttranslational modification]; other site 379731005257 transaldolase-like protein; Provisional; Region: PTZ00411 379731005258 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 379731005259 active site 379731005260 dimer interface [polypeptide binding]; other site 379731005261 catalytic residue [active] 379731005262 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 379731005263 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 379731005264 FMN binding site [chemical binding]; other site 379731005265 active site 379731005266 catalytic residues [active] 379731005267 substrate binding site [chemical binding]; other site 379731005268 DctM-like transporters; Region: DctM; pfam06808 379731005269 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 379731005270 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 379731005271 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 379731005272 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 379731005273 Tannase and feruloyl esterase; Region: Tannase; pfam07519 379731005274 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 379731005275 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731005276 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 379731005277 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731005278 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 379731005279 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 379731005280 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 379731005281 putative alpha subunit interface [polypeptide binding]; other site 379731005282 putative active site [active] 379731005283 putative substrate binding site [chemical binding]; other site 379731005284 Fe binding site [ion binding]; other site 379731005285 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 379731005286 inter-subunit interface; other site 379731005287 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 379731005288 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 379731005289 catalytic loop [active] 379731005290 iron binding site [ion binding]; other site 379731005291 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 379731005292 FAD binding pocket [chemical binding]; other site 379731005293 FAD binding motif [chemical binding]; other site 379731005294 phosphate binding motif [ion binding]; other site 379731005295 beta-alpha-beta structure motif; other site 379731005296 NAD binding pocket [chemical binding]; other site 379731005297 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 379731005298 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 379731005299 putative NAD(P) binding site [chemical binding]; other site 379731005300 active site 379731005301 benzoate transport; Region: 2A0115; TIGR00895 379731005302 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731005303 putative substrate translocation pore; other site 379731005304 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 379731005305 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 379731005306 octamer interface [polypeptide binding]; other site 379731005307 active site 379731005308 Muconolactone delta-isomerase; Region: MIase; cl01992 379731005309 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 379731005310 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 379731005311 dimer interface [polypeptide binding]; other site 379731005312 active site 379731005313 benzoate transporter; Region: benE; TIGR00843 379731005314 Benzoate membrane transport protein; Region: BenE; pfam03594 379731005315 outer membrane porin, OprD family; Region: OprD; pfam03573 379731005316 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 379731005317 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 379731005318 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 379731005319 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 379731005320 PAS domain; Region: PAS_9; pfam13426 379731005321 putative active site [active] 379731005322 heme pocket [chemical binding]; other site 379731005323 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 379731005324 dimer interface [polypeptide binding]; other site 379731005325 phosphorylation site [posttranslational modification] 379731005326 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 379731005327 ATP binding site [chemical binding]; other site 379731005328 Mg2+ binding site [ion binding]; other site 379731005329 G-X-G motif; other site 379731005330 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731005331 active site 379731005332 phosphorylation site [posttranslational modification] 379731005333 intermolecular recognition site; other site 379731005334 dimerization interface [polypeptide binding]; other site 379731005335 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 379731005336 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 379731005337 mercuric reductase; Validated; Region: PRK06370 379731005338 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 379731005339 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 379731005340 fumarate hydratase; Provisional; Region: PRK12425 379731005341 Class II fumarases; Region: Fumarase_classII; cd01362 379731005342 active site 379731005343 tetramer interface [polypeptide binding]; other site 379731005344 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 379731005345 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 379731005346 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 379731005347 active site residue [active] 379731005348 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 379731005349 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 379731005350 catalytic residues [active] 379731005351 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 379731005352 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 379731005353 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731005354 Walker A/P-loop; other site 379731005355 ATP binding site [chemical binding]; other site 379731005356 Q-loop/lid; other site 379731005357 ABC transporter signature motif; other site 379731005358 Walker B; other site 379731005359 D-loop; other site 379731005360 H-loop/switch region; other site 379731005361 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 379731005362 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 379731005363 dimerization interface [polypeptide binding]; other site 379731005364 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731005365 dimer interface [polypeptide binding]; other site 379731005366 putative CheW interface [polypeptide binding]; other site 379731005367 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 379731005368 hypothetical protein; Provisional; Region: PRK09256 379731005369 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 379731005370 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731005371 putative substrate translocation pore; other site 379731005372 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 379731005373 Predicted membrane protein [Function unknown]; Region: COG4325 379731005374 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 379731005375 Uncharacterized conserved protein [Function unknown]; Region: COG3777 379731005376 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 379731005377 active site 2 [active] 379731005378 active site 1 [active] 379731005379 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 379731005380 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 379731005381 active site 379731005382 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 379731005383 dimer interface [polypeptide binding]; other site 379731005384 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 379731005385 metal binding site [ion binding]; metal-binding site 379731005386 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 379731005387 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 379731005388 CoA-transferase family III; Region: CoA_transf_3; pfam02515 379731005389 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 379731005390 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 379731005391 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 379731005392 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 379731005393 FMN binding site [chemical binding]; other site 379731005394 Transposase domain (DUF772); Region: DUF772; pfam05598 379731005395 HTH-like domain; Region: HTH_21; pfam13276 379731005396 Integrase core domain; Region: rve; pfam00665 379731005397 Integrase core domain; Region: rve_3; pfam13683 379731005398 Transposase; Region: HTH_Tnp_1; pfam01527 379731005399 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 379731005400 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 379731005401 putative active site [active] 379731005402 putative NTP binding site [chemical binding]; other site 379731005403 putative nucleic acid binding site [nucleotide binding]; other site 379731005404 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 379731005405 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 379731005406 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 379731005407 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 379731005408 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 379731005409 Walker A/P-loop; other site 379731005410 ATP binding site [chemical binding]; other site 379731005411 Q-loop/lid; other site 379731005412 ABC transporter signature motif; other site 379731005413 Walker B; other site 379731005414 D-loop; other site 379731005415 H-loop/switch region; other site 379731005416 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 379731005417 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 379731005418 Walker A/P-loop; other site 379731005419 ATP binding site [chemical binding]; other site 379731005420 Q-loop/lid; other site 379731005421 ABC transporter signature motif; other site 379731005422 Walker B; other site 379731005423 D-loop; other site 379731005424 H-loop/switch region; other site 379731005425 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 379731005426 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 379731005427 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731005428 dimer interface [polypeptide binding]; other site 379731005429 conserved gate region; other site 379731005430 putative PBP binding loops; other site 379731005431 ABC-ATPase subunit interface; other site 379731005432 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 379731005433 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731005434 dimer interface [polypeptide binding]; other site 379731005435 conserved gate region; other site 379731005436 putative PBP binding loops; other site 379731005437 ABC-ATPase subunit interface; other site 379731005438 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 379731005439 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 379731005440 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 379731005441 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 379731005442 N-terminal plug; other site 379731005443 ligand-binding site [chemical binding]; other site 379731005444 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 379731005445 TolR protein; Region: tolR; TIGR02801 379731005446 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 379731005447 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 379731005448 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 379731005449 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 379731005450 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 379731005451 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 379731005452 active site 379731005453 catalytic residues [active] 379731005454 metal binding site [ion binding]; metal-binding site 379731005455 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 379731005456 CoA-transferase family III; Region: CoA_transf_3; pfam02515 379731005457 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731005458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731005459 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 379731005460 dimerization interface [polypeptide binding]; other site 379731005461 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 379731005462 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 379731005463 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 379731005464 acetyl-CoA synthetase; Provisional; Region: PRK00174 379731005465 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 379731005466 active site 379731005467 CoA binding site [chemical binding]; other site 379731005468 acyl-activating enzyme (AAE) consensus motif; other site 379731005469 AMP binding site [chemical binding]; other site 379731005470 acetate binding site [chemical binding]; other site 379731005471 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 379731005472 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 379731005473 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 379731005474 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 379731005475 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 379731005476 substrate binding site [chemical binding]; other site 379731005477 oxyanion hole (OAH) forming residues; other site 379731005478 trimer interface [polypeptide binding]; other site 379731005479 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 379731005480 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 379731005481 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 379731005482 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 379731005483 dimer interface [polypeptide binding]; other site 379731005484 active site 379731005485 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 379731005486 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 379731005487 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 379731005488 active site 379731005489 interdomain interaction site; other site 379731005490 putative metal-binding site [ion binding]; other site 379731005491 nucleotide binding site [chemical binding]; other site 379731005492 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 379731005493 domain I; other site 379731005494 DNA binding groove [nucleotide binding] 379731005495 phosphate binding site [ion binding]; other site 379731005496 domain II; other site 379731005497 domain III; other site 379731005498 nucleotide binding site [chemical binding]; other site 379731005499 catalytic site [active] 379731005500 domain IV; other site 379731005501 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 379731005502 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 379731005503 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 379731005504 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 379731005505 Cell division inhibitor SulA; Region: SulA; cl01880 379731005506 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 379731005507 Catalytic site [active] 379731005508 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 379731005509 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731005510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 379731005511 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 379731005512 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 379731005513 beta-hexosaminidase; Provisional; Region: PRK05337 379731005514 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 379731005515 Water Stress and Hypersensitive response; Region: WHy; smart00769 379731005516 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 379731005517 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 379731005518 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 379731005519 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 379731005520 active site 379731005521 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 379731005522 homodimer interaction site [polypeptide binding]; other site 379731005523 cofactor binding site; other site 379731005524 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 379731005525 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 379731005526 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731005527 catalytic residue [active] 379731005528 choline transport protein BetT; Provisional; Region: PRK09928 379731005529 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 379731005530 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 379731005531 NAD(P) binding site [chemical binding]; other site 379731005532 catalytic residues [active] 379731005533 choline dehydrogenase; Validated; Region: PRK02106 379731005534 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 379731005535 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 379731005536 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 379731005537 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 379731005538 FeS/SAM binding site; other site 379731005539 Acyltransferase family; Region: Acyl_transf_3; pfam01757 379731005540 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 379731005541 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 379731005542 active site 379731005543 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 379731005544 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 379731005545 putative ADP-binding pocket [chemical binding]; other site 379731005546 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 379731005547 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 379731005548 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 379731005549 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 379731005550 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 379731005551 transcriptional activator RfaH; Region: RfaH; TIGR01955 379731005552 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 379731005553 heterodimer interface [polypeptide binding]; other site 379731005554 homodimer interface [polypeptide binding]; other site 379731005555 WbqC-like protein family; Region: WbqC; pfam08889 379731005556 tyrosine kinase; Provisional; Region: PRK11519 379731005557 Chain length determinant protein; Region: Wzz; pfam02706 379731005558 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 379731005559 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 379731005560 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 379731005561 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 379731005562 active site 379731005563 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 379731005564 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 379731005565 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 379731005566 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 379731005567 inhibitor-cofactor binding pocket; inhibition site 379731005568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731005569 catalytic residue [active] 379731005570 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 379731005571 FMN binding site [chemical binding]; other site 379731005572 active site 379731005573 catalytic residues [active] 379731005574 substrate binding site [chemical binding]; other site 379731005575 short chain dehydrogenase; Provisional; Region: PRK06123 379731005576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731005577 NAD(P) binding site [chemical binding]; other site 379731005578 active site 379731005579 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 379731005580 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 379731005581 putative dimer interface [polypeptide binding]; other site 379731005582 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731005583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731005584 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 379731005585 dimerization interface [polypeptide binding]; other site 379731005586 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 379731005587 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 379731005588 substrate binding site [chemical binding]; other site 379731005589 ligand binding site [chemical binding]; other site 379731005590 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 379731005591 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 379731005592 substrate binding site [chemical binding]; other site 379731005593 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 379731005594 tartrate dehydrogenase; Region: TTC; TIGR02089 379731005595 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 379731005596 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 379731005597 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 379731005598 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 379731005599 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 379731005600 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 379731005601 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 379731005602 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 379731005603 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 379731005604 dimerization interface 3.5A [polypeptide binding]; other site 379731005605 active site 379731005606 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 379731005607 active site 379731005608 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 379731005609 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 379731005610 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 379731005611 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 379731005612 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 379731005613 Sporulation related domain; Region: SPOR; pfam05036 379731005614 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 379731005615 Colicin V production protein; Region: Colicin_V; pfam02674 379731005616 amidophosphoribosyltransferase; Provisional; Region: PRK09246 379731005617 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 379731005618 active site 379731005619 tetramer interface [polypeptide binding]; other site 379731005620 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 379731005621 active site 379731005622 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 379731005623 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 379731005624 homodimer interface [polypeptide binding]; other site 379731005625 substrate-cofactor binding pocket; other site 379731005626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731005627 catalytic residue [active] 379731005628 type II secretion system protein D; Region: type_II_gspD; TIGR02517 379731005629 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 379731005630 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 379731005631 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 379731005632 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 379731005633 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 379731005634 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 379731005635 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 379731005636 DNA binding residues [nucleotide binding] 379731005637 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 379731005638 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 379731005639 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 379731005640 Coenzyme A binding pocket [chemical binding]; other site 379731005641 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 379731005642 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 379731005643 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 379731005644 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 379731005645 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 379731005646 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 379731005647 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 379731005648 N-terminal plug; other site 379731005649 ligand-binding site [chemical binding]; other site 379731005650 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 379731005651 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 379731005652 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 379731005653 tetramer interface [polypeptide binding]; other site 379731005654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731005655 catalytic residue [active] 379731005656 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731005657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731005658 dimerization interface [polypeptide binding]; other site 379731005659 LysR substrate binding domain; Region: LysR_substrate; pfam03466 379731005660 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 379731005661 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 379731005662 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731005663 putative substrate translocation pore; other site 379731005664 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731005665 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 379731005666 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 379731005667 tetramer interface [polypeptide binding]; other site 379731005668 active site 379731005669 Mg2+/Mn2+ binding site [ion binding]; other site 379731005670 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 379731005671 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 379731005672 putative active site [active] 379731005673 heme pocket [chemical binding]; other site 379731005674 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 379731005675 putative active site [active] 379731005676 heme pocket [chemical binding]; other site 379731005677 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731005678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731005679 metal binding site [ion binding]; metal-binding site 379731005680 active site 379731005681 I-site; other site 379731005682 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 379731005683 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 379731005684 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 379731005685 active site 379731005686 Zn binding site [ion binding]; other site 379731005687 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 379731005688 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 379731005689 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 379731005690 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 379731005691 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 379731005692 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 379731005693 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731005694 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 379731005695 active site 379731005696 catalytic triad [active] 379731005697 dimer interface [polypeptide binding]; other site 379731005698 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 379731005699 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 379731005700 active site 379731005701 FMN binding site [chemical binding]; other site 379731005702 2,4-decadienoyl-CoA binding site; other site 379731005703 catalytic residue [active] 379731005704 4Fe-4S cluster binding site [ion binding]; other site 379731005705 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 379731005706 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 379731005707 SnoaL-like domain; Region: SnoaL_2; pfam12680 379731005708 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 379731005709 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 379731005710 catalytic residue [active] 379731005711 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 379731005712 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 379731005713 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 379731005714 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 379731005715 ligand binding site [chemical binding]; other site 379731005716 flexible hinge region; other site 379731005717 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 379731005718 active site residue [active] 379731005719 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 379731005720 multidrug efflux protein; Reviewed; Region: PRK01766 379731005721 cation binding site [ion binding]; other site 379731005722 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 379731005723 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 379731005724 ligand binding site [chemical binding]; other site 379731005725 NAD binding site [chemical binding]; other site 379731005726 catalytic site [active] 379731005727 homodimer interface [polypeptide binding]; other site 379731005728 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 379731005729 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 379731005730 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 379731005731 putative active site [active] 379731005732 putative NTP binding site [chemical binding]; other site 379731005733 putative nucleic acid binding site [nucleotide binding]; other site 379731005734 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 379731005735 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 379731005736 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 379731005737 active site 379731005738 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 379731005739 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 379731005740 Walker A motif; other site 379731005741 ATP binding site [chemical binding]; other site 379731005742 Walker B motif; other site 379731005743 arginine finger; other site 379731005744 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 379731005745 hypothetical protein; Validated; Region: PRK00153 379731005746 recombination protein RecR; Reviewed; Region: recR; PRK00076 379731005747 RecR protein; Region: RecR; pfam02132 379731005748 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 379731005749 putative active site [active] 379731005750 putative metal-binding site [ion binding]; other site 379731005751 tetramer interface [polypeptide binding]; other site 379731005752 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 379731005753 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 379731005754 substrate binding pocket [chemical binding]; other site 379731005755 membrane-bound complex binding site; other site 379731005756 hinge residues; other site 379731005757 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 379731005758 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 379731005759 Walker A/P-loop; other site 379731005760 ATP binding site [chemical binding]; other site 379731005761 Q-loop/lid; other site 379731005762 ABC transporter signature motif; other site 379731005763 Walker B; other site 379731005764 D-loop; other site 379731005765 H-loop/switch region; other site 379731005766 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 379731005767 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731005768 dimer interface [polypeptide binding]; other site 379731005769 conserved gate region; other site 379731005770 putative PBP binding loops; other site 379731005771 ABC-ATPase subunit interface; other site 379731005772 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 379731005773 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 379731005774 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 379731005775 Cu(I) binding site [ion binding]; other site 379731005776 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 379731005777 active site 379731005778 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 379731005779 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 379731005780 ligand binding site [chemical binding]; other site 379731005781 flexible hinge region; other site 379731005782 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 379731005783 putative switch regulator; other site 379731005784 non-specific DNA interactions [nucleotide binding]; other site 379731005785 DNA binding site [nucleotide binding] 379731005786 sequence specific DNA binding site [nucleotide binding]; other site 379731005787 putative cAMP binding site [chemical binding]; other site 379731005788 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 379731005789 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 379731005790 FeS/SAM binding site; other site 379731005791 HemN C-terminal domain; Region: HemN_C; pfam06969 379731005792 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 379731005793 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 379731005794 homodimer interface [polypeptide binding]; other site 379731005795 NAD binding pocket [chemical binding]; other site 379731005796 ATP binding pocket [chemical binding]; other site 379731005797 Mg binding site [ion binding]; other site 379731005798 active-site loop [active] 379731005799 Uncharacterized conserved protein [Function unknown]; Region: COG2836 379731005800 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 379731005801 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 379731005802 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 379731005803 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 379731005804 metal-binding site [ion binding] 379731005805 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 379731005806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 379731005807 FixH; Region: FixH; pfam05751 379731005808 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 379731005809 4Fe-4S binding domain; Region: Fer4_5; pfam12801 379731005810 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 379731005811 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 379731005812 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 379731005813 Cytochrome c; Region: Cytochrom_C; pfam00034 379731005814 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 379731005815 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 379731005816 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 379731005817 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 379731005818 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 379731005819 Low-spin heme binding site [chemical binding]; other site 379731005820 Putative water exit pathway; other site 379731005821 Binuclear center (active site) [active] 379731005822 Putative proton exit pathway; other site 379731005823 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 379731005824 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 379731005825 Cytochrome c; Region: Cytochrom_C; pfam00034 379731005826 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 379731005827 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 379731005828 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 379731005829 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 379731005830 Low-spin heme binding site [chemical binding]; other site 379731005831 Putative water exit pathway; other site 379731005832 Binuclear center (active site) [active] 379731005833 Putative proton exit pathway; other site 379731005834 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 379731005835 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 379731005836 PAS domain; Region: PAS_9; pfam13426 379731005837 putative active site [active] 379731005838 heme pocket [chemical binding]; other site 379731005839 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731005840 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731005841 dimer interface [polypeptide binding]; other site 379731005842 putative CheW interface [polypeptide binding]; other site 379731005843 aconitate hydratase; Validated; Region: PRK09277 379731005844 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 379731005845 substrate binding site [chemical binding]; other site 379731005846 ligand binding site [chemical binding]; other site 379731005847 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 379731005848 substrate binding site [chemical binding]; other site 379731005849 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 379731005850 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 379731005851 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 379731005852 CPxP motif; other site 379731005853 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 379731005854 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 379731005855 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 379731005856 D-pathway; other site 379731005857 Putative ubiquinol binding site [chemical binding]; other site 379731005858 Low-spin heme (heme b) binding site [chemical binding]; other site 379731005859 Putative water exit pathway; other site 379731005860 Binuclear center (heme o3/CuB) [ion binding]; other site 379731005861 K-pathway; other site 379731005862 Putative proton exit pathway; other site 379731005863 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 379731005864 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 379731005865 Cytochrome c; Region: Cytochrom_C; pfam00034 379731005866 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 379731005867 Ion transport protein; Region: Ion_trans; pfam00520 379731005868 Ion channel; Region: Ion_trans_2; pfam07885 379731005869 Double zinc ribbon; Region: DZR; pfam12773 379731005870 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 379731005871 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 379731005872 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 379731005873 FeS/SAM binding site; other site 379731005874 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 379731005875 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 379731005876 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 379731005877 Walker A/P-loop; other site 379731005878 ATP binding site [chemical binding]; other site 379731005879 Q-loop/lid; other site 379731005880 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 379731005881 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 379731005882 ABC transporter signature motif; other site 379731005883 Walker B; other site 379731005884 D-loop; other site 379731005885 H-loop/switch region; other site 379731005886 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 379731005887 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 379731005888 FtsZ protein binding site [polypeptide binding]; other site 379731005889 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 379731005890 DNA ligase, NAD-dependent; Region: dnlj; TIGR00575 379731005891 nucleotide binding pocket [chemical binding]; other site 379731005892 K-X-D-G motif; other site 379731005893 catalytic site [active] 379731005894 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 379731005895 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 379731005896 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 379731005897 Dimer interface [polypeptide binding]; other site 379731005898 flagellin; Reviewed; Region: PRK08869 379731005899 putative transposase OrfB; Reviewed; Region: PHA02517 379731005900 HTH-like domain; Region: HTH_21; pfam13276 379731005901 Integrase core domain; Region: rve; pfam00665 379731005902 Integrase core domain; Region: rve_2; pfam13333 379731005903 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 379731005904 Transposase; Region: HTH_Tnp_1; pfam01527 379731005905 flagellin; Provisional; Region: PRK12804 379731005906 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 379731005907 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 379731005908 FlaG protein; Region: FlaG; pfam03646 379731005909 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 379731005910 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 379731005911 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 379731005912 putative transposase OrfB; Reviewed; Region: PHA02517 379731005913 HTH-like domain; Region: HTH_21; pfam13276 379731005914 Integrase core domain; Region: rve; pfam00665 379731005915 Integrase core domain; Region: rve_3; pfam13683 379731005916 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 379731005917 Transposase; Region: HTH_Tnp_1; pfam01527 379731005918 flagellar protein FliS; Validated; Region: fliS; PRK05685 379731005919 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 379731005920 Flagellar protein FliT; Region: FliT; cl05125 379731005921 Protein of unknown function, DUF486; Region: DUF486; pfam04342 379731005922 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 379731005923 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 379731005924 dimer interface [polypeptide binding]; other site 379731005925 active site 379731005926 citrylCoA binding site [chemical binding]; other site 379731005927 NADH binding [chemical binding]; other site 379731005928 cationic pore residues; other site 379731005929 oxalacetate/citrate binding site [chemical binding]; other site 379731005930 coenzyme A binding site [chemical binding]; other site 379731005931 catalytic triad [active] 379731005932 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 379731005933 Iron-sulfur protein interface; other site 379731005934 proximal quinone binding site [chemical binding]; other site 379731005935 SdhD (CybS) interface [polypeptide binding]; other site 379731005936 proximal heme binding site [chemical binding]; other site 379731005937 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 379731005938 SdhC subunit interface [polypeptide binding]; other site 379731005939 proximal heme binding site [chemical binding]; other site 379731005940 cardiolipin binding site; other site 379731005941 Iron-sulfur protein interface; other site 379731005942 proximal quinone binding site [chemical binding]; other site 379731005943 L-aspartate oxidase; Provisional; Region: PRK06175 379731005944 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 379731005945 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 379731005946 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 379731005947 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 379731005948 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 379731005949 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 379731005950 TPP-binding site [chemical binding]; other site 379731005951 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 379731005952 PYR/PP interface [polypeptide binding]; other site 379731005953 dimer interface [polypeptide binding]; other site 379731005954 TPP binding site [chemical binding]; other site 379731005955 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 379731005956 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 379731005957 E3 interaction surface; other site 379731005958 lipoyl attachment site [posttranslational modification]; other site 379731005959 e3 binding domain; Region: E3_binding; pfam02817 379731005960 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 379731005961 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 379731005962 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 379731005963 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 379731005964 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 379731005965 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 379731005966 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 379731005967 CoA-ligase; Region: Ligase_CoA; pfam00549 379731005968 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 379731005969 CoA binding domain; Region: CoA_binding; smart00881 379731005970 CoA-ligase; Region: Ligase_CoA; pfam00549 379731005971 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 379731005972 Predicted membrane protein [Function unknown]; Region: COG3821 379731005973 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 379731005974 CoenzymeA binding site [chemical binding]; other site 379731005975 subunit interaction site [polypeptide binding]; other site 379731005976 PHB binding site; other site 379731005977 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 379731005978 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 379731005979 CoenzymeA binding site [chemical binding]; other site 379731005980 subunit interaction site [polypeptide binding]; other site 379731005981 PHB binding site; other site 379731005982 heat shock protein 90; Provisional; Region: PRK05218 379731005983 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 379731005984 ATP binding site [chemical binding]; other site 379731005985 Mg2+ binding site [ion binding]; other site 379731005986 G-X-G motif; other site 379731005987 OsmC-like protein; Region: OsmC; pfam02566 379731005988 Amidohydrolase; Region: Amidohydro_2; pfam04909 379731005989 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 379731005990 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 379731005991 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 379731005992 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 379731005993 dimerization interface [polypeptide binding]; other site 379731005994 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731005995 dimer interface [polypeptide binding]; other site 379731005996 putative CheW interface [polypeptide binding]; other site 379731005997 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 379731005998 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 379731005999 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731006000 dimer interface [polypeptide binding]; other site 379731006001 putative CheW interface [polypeptide binding]; other site 379731006002 serine/threonine transporter SstT; Provisional; Region: PRK13628 379731006003 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 379731006004 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 379731006005 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 379731006006 dimer interface [polypeptide binding]; other site 379731006007 active site 379731006008 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 379731006009 active site 1 [active] 379731006010 dimer interface [polypeptide binding]; other site 379731006011 active site 2 [active] 379731006012 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 379731006013 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 379731006014 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 379731006015 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 379731006016 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 379731006017 catalytic core [active] 379731006018 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 379731006019 CoenzymeA binding site [chemical binding]; other site 379731006020 subunit interaction site [polypeptide binding]; other site 379731006021 PHB binding site; other site 379731006022 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 379731006023 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 379731006024 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 379731006025 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 379731006026 Domain of unknown function DUF20; Region: UPF0118; pfam01594 379731006027 hypothetical protein; Provisional; Region: PRK10279 379731006028 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 379731006029 active site 379731006030 nucleophile elbow; other site 379731006031 selenophosphate synthetase; Provisional; Region: PRK00943 379731006032 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 379731006033 dimerization interface [polypeptide binding]; other site 379731006034 putative ATP binding site [chemical binding]; other site 379731006035 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 379731006036 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 379731006037 active site residue [active] 379731006038 MoxR-like ATPases [General function prediction only]; Region: COG0714 379731006039 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 379731006040 Walker A motif; other site 379731006041 ATP binding site [chemical binding]; other site 379731006042 Walker B motif; other site 379731006043 arginine finger; other site 379731006044 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 379731006045 Protein of unknown function DUF58; Region: DUF58; pfam01882 379731006046 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 379731006047 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 379731006048 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 379731006049 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 379731006050 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 379731006051 active site 379731006052 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 379731006053 active site 2 [active] 379731006054 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 379731006055 catalytic residues [active] 379731006056 Predicted membrane protein [Function unknown]; Region: COG1238 379731006057 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 379731006058 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 379731006059 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731006060 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 379731006061 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731006062 NAD(P) binding site [chemical binding]; other site 379731006063 active site 379731006064 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 379731006065 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 379731006066 dimer interface [polypeptide binding]; other site 379731006067 active site 379731006068 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 379731006069 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 379731006070 active site 379731006071 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 379731006072 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 379731006073 acyl-activating enzyme (AAE) consensus motif; other site 379731006074 AMP binding site [chemical binding]; other site 379731006075 active site 379731006076 CoA binding site [chemical binding]; other site 379731006077 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 379731006078 CoA-transferase family III; Region: CoA_transf_3; pfam02515 379731006079 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 379731006080 Transposase; Region: DDE_Tnp_ISL3; pfam01610 379731006081 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 379731006082 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 379731006083 active site 379731006084 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 379731006085 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 379731006086 substrate binding site [chemical binding]; other site 379731006087 oxyanion hole (OAH) forming residues; other site 379731006088 trimer interface [polypeptide binding]; other site 379731006089 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 379731006090 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 379731006091 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 379731006092 enoyl-CoA hydratase; Provisional; Region: PRK05862 379731006093 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 379731006094 substrate binding site [chemical binding]; other site 379731006095 oxyanion hole (OAH) forming residues; other site 379731006096 trimer interface [polypeptide binding]; other site 379731006097 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 379731006098 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 379731006099 tetrameric interface [polypeptide binding]; other site 379731006100 NAD binding site [chemical binding]; other site 379731006101 catalytic residues [active] 379731006102 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731006103 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731006104 LysR substrate binding domain; Region: LysR_substrate; pfam03466 379731006105 dimerization interface [polypeptide binding]; other site 379731006106 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 379731006107 putative homodimer interface [polypeptide binding]; other site 379731006108 putative active site pocket [active] 379731006109 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 379731006110 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 379731006111 putative catalytic site [active] 379731006112 putative metal binding site [ion binding]; other site 379731006113 putative phosphate binding site [ion binding]; other site 379731006114 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 379731006115 Transglycosylase; Region: Transgly; pfam00912 379731006116 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 379731006117 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 379731006118 Helix-turn-helix domain; Region: HTH_18; pfam12833 379731006119 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731006120 AzlC protein; Region: AzlC; pfam03591 379731006121 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 379731006122 Bacterial SH3 domain; Region: SH3_3; pfam08239 379731006123 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 379731006124 PAS fold; Region: PAS_3; pfam08447 379731006125 putative active site [active] 379731006126 heme pocket [chemical binding]; other site 379731006127 PAS domain S-box; Region: sensory_box; TIGR00229 379731006128 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 379731006129 putative active site [active] 379731006130 heme pocket [chemical binding]; other site 379731006131 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731006132 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 379731006133 ATP binding site [chemical binding]; other site 379731006134 Mg2+ binding site [ion binding]; other site 379731006135 G-X-G motif; other site 379731006136 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731006137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731006138 active site 379731006139 phosphorylation site [posttranslational modification] 379731006140 intermolecular recognition site; other site 379731006141 dimerization interface [polypeptide binding]; other site 379731006142 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 379731006143 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 379731006144 TrkA-N domain; Region: TrkA_N; pfam02254 379731006145 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 379731006146 TrkA-C domain; Region: TrkA_C; pfam02080 379731006147 Uncharacterized conserved protein [Function unknown]; Region: COG3791 379731006148 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 379731006149 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 379731006150 putative molybdopterin cofactor binding site [chemical binding]; other site 379731006151 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 379731006152 putative molybdopterin cofactor binding site; other site 379731006153 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 379731006154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731006155 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 379731006156 dimerization interface [polypeptide binding]; other site 379731006157 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 379731006158 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 379731006159 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731006160 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731006161 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731006162 metal binding site [ion binding]; metal-binding site 379731006163 active site 379731006164 I-site; other site 379731006165 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 379731006166 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 379731006167 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 379731006168 Phytase; Region: Phytase; cl17685 379731006169 Phytase; Region: Phytase; cl17685 379731006170 TolQ protein; Region: tolQ; TIGR02796 379731006171 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 379731006172 TolR protein; Region: tolR; TIGR02801 379731006173 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 379731006174 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 379731006175 PAS domain; Region: PAS_9; pfam13426 379731006176 PAS fold; Region: PAS_4; pfam08448 379731006177 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 379731006178 putative active site [active] 379731006179 heme pocket [chemical binding]; other site 379731006180 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 379731006181 GAF domain; Region: GAF; pfam01590 379731006182 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 379731006183 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 379731006184 dimer interface [polypeptide binding]; other site 379731006185 phosphorylation site [posttranslational modification] 379731006186 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 379731006187 ATP binding site [chemical binding]; other site 379731006188 G-X-G motif; other site 379731006189 Response regulator receiver domain; Region: Response_reg; pfam00072 379731006190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731006191 active site 379731006192 phosphorylation site [posttranslational modification] 379731006193 intermolecular recognition site; other site 379731006194 dimerization interface [polypeptide binding]; other site 379731006195 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 379731006196 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 379731006197 Family description; Region: UvrD_C_2; pfam13538 379731006198 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 379731006199 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 379731006200 Catalytic domain of Protein Kinases; Region: PKc; cd00180 379731006201 active site 379731006202 ATP binding site [chemical binding]; other site 379731006203 substrate binding site [chemical binding]; other site 379731006204 activation loop (A-loop); other site 379731006205 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 379731006206 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 379731006207 nitrite reductase subunit NirD; Provisional; Region: PRK14989 379731006208 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 379731006209 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 379731006210 NAD-dependent deacetylase; Provisional; Region: PRK00481 379731006211 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 379731006212 NAD+ binding site [chemical binding]; other site 379731006213 substrate binding site [chemical binding]; other site 379731006214 Zn binding site [ion binding]; other site 379731006215 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 379731006216 HemN C-terminal domain; Region: HemN_C; pfam06969 379731006217 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731006218 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731006219 dimer interface [polypeptide binding]; other site 379731006220 putative CheW interface [polypeptide binding]; other site 379731006221 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 379731006222 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 379731006223 S-adenosylmethionine binding site [chemical binding]; other site 379731006224 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 379731006225 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 379731006226 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 379731006227 short chain dehydrogenase; Provisional; Region: PRK06101 379731006228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731006229 NAD(P) binding site [chemical binding]; other site 379731006230 active site 379731006231 SnoaL-like domain; Region: SnoaL_2; pfam12680 379731006232 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 379731006233 DNA photolyase; Region: DNA_photolyase; pfam00875 379731006234 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 379731006235 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 379731006236 DNA binding residues [nucleotide binding] 379731006237 B12 binding domain; Region: B12-binding_2; pfam02607 379731006238 Protein of unknown function (DUF523); Region: DUF523; pfam04463 379731006239 Uncharacterized conserved protein [Function unknown]; Region: COG3272 379731006240 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 379731006241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731006242 TIGR01777 family protein; Region: yfcH 379731006243 NAD(P) binding site [chemical binding]; other site 379731006244 active site 379731006245 ferrochelatase; Reviewed; Region: hemH; PRK00035 379731006246 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 379731006247 C-terminal domain interface [polypeptide binding]; other site 379731006248 active site 379731006249 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 379731006250 active site 379731006251 N-terminal domain interface [polypeptide binding]; other site 379731006252 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 379731006253 PAS fold; Region: PAS_4; pfam08448 379731006254 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 379731006255 putative active site [active] 379731006256 heme pocket [chemical binding]; other site 379731006257 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 379731006258 PAS domain; Region: PAS_9; pfam13426 379731006259 putative active site [active] 379731006260 heme pocket [chemical binding]; other site 379731006261 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731006262 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731006263 metal binding site [ion binding]; metal-binding site 379731006264 active site 379731006265 I-site; other site 379731006266 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 379731006267 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 379731006268 PAS domain; Region: PAS_9; pfam13426 379731006269 putative active site [active] 379731006270 heme pocket [chemical binding]; other site 379731006271 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 379731006272 MFS/sugar transport protein; Region: MFS_2; pfam13347 379731006273 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 379731006274 active site 379731006275 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 379731006276 homodecamer interface [polypeptide binding]; other site 379731006277 GTP cyclohydrolase I; Provisional; Region: PLN03044 379731006278 active site 379731006279 putative catalytic site residues [active] 379731006280 zinc binding site [ion binding]; other site 379731006281 GTP-CH-I/GFRP interaction surface; other site 379731006282 Protein of unknown function, DUF393; Region: DUF393; pfam04134 379731006283 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 379731006284 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 379731006285 DNA binding residues [nucleotide binding] 379731006286 B12 binding domain; Region: B12-binding_2; pfam02607 379731006287 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 379731006288 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 379731006289 Gram-negative porin; Region: Porin_4; pfam13609 379731006290 Uncharacterized conserved protein [Function unknown]; Region: COG3287 379731006291 FIST N domain; Region: FIST; pfam08495 379731006292 FIST C domain; Region: FIST_C; pfam10442 379731006293 PAS fold; Region: PAS_7; pfam12860 379731006294 PAS fold; Region: PAS_7; pfam12860 379731006295 PAS domain S-box; Region: sensory_box; TIGR00229 379731006296 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 379731006297 putative active site [active] 379731006298 heme pocket [chemical binding]; other site 379731006299 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731006300 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 379731006301 dimer interface [polypeptide binding]; other site 379731006302 phosphorylation site [posttranslational modification] 379731006303 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 379731006304 ATP binding site [chemical binding]; other site 379731006305 Mg2+ binding site [ion binding]; other site 379731006306 G-X-G motif; other site 379731006307 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731006308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731006309 active site 379731006310 phosphorylation site [posttranslational modification] 379731006311 intermolecular recognition site; other site 379731006312 dimerization interface [polypeptide binding]; other site 379731006313 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 379731006314 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 379731006315 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 379731006316 putative dimer interface [polypeptide binding]; other site 379731006317 N-terminal domain interface [polypeptide binding]; other site 379731006318 putative substrate binding pocket (H-site) [chemical binding]; other site 379731006319 hypothetical protein; Validated; Region: PRK09071 379731006320 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 379731006321 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 379731006322 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 379731006323 DsrC like protein; Region: DsrC; cl01101 379731006324 sulfur relay protein TusC; Validated; Region: PRK00211 379731006325 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 379731006326 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731006327 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 379731006328 YccA-like proteins; Region: YccA_like; cd10433 379731006329 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 379731006330 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 379731006331 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731006332 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 379731006333 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 379731006334 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 379731006335 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 379731006336 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 379731006337 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 379731006338 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 379731006339 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 379731006340 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731006341 dimer interface [polypeptide binding]; other site 379731006342 conserved gate region; other site 379731006343 putative PBP binding loops; other site 379731006344 ABC-ATPase subunit interface; other site 379731006345 Isochorismatase family; Region: Isochorismatase; pfam00857 379731006346 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 379731006347 catalytic triad [active] 379731006348 conserved cis-peptide bond; other site 379731006349 Creatinine amidohydrolase; Region: Creatininase; pfam02633 379731006350 EamA-like transporter family; Region: EamA; pfam00892 379731006351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731006352 NAD(P) binding site [chemical binding]; other site 379731006353 active site 379731006354 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 379731006355 classical (c) SDRs; Region: SDR_c; cd05233 379731006356 NAD(P) binding site [chemical binding]; other site 379731006357 active site 379731006358 Fatty acid desaturase; Region: FA_desaturase; pfam00487 379731006359 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 379731006360 putative di-iron ligands [ion binding]; other site 379731006361 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 379731006362 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 379731006363 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 379731006364 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 379731006365 active site 379731006366 catalytic tetrad [active] 379731006367 allophanate hydrolase; Provisional; Region: PRK08186 379731006368 Amidase; Region: Amidase; cl11426 379731006369 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 379731006370 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 379731006371 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 379731006372 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 379731006373 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 379731006374 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 379731006375 Walker A/P-loop; other site 379731006376 ATP binding site [chemical binding]; other site 379731006377 Q-loop/lid; other site 379731006378 ABC transporter signature motif; other site 379731006379 Walker B; other site 379731006380 D-loop; other site 379731006381 H-loop/switch region; other site 379731006382 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 379731006383 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 379731006384 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 379731006385 dimerization interface [polypeptide binding]; other site 379731006386 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731006387 dimer interface [polypeptide binding]; other site 379731006388 putative CheW interface [polypeptide binding]; other site 379731006389 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 379731006390 active site 379731006391 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 379731006392 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 379731006393 substrate binding pocket [chemical binding]; other site 379731006394 membrane-bound complex binding site; other site 379731006395 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 379731006396 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 379731006397 N-acetyl-D-glucosamine binding site [chemical binding]; other site 379731006398 catalytic residue [active] 379731006399 lipase chaperone; Provisional; Region: PRK01294 379731006400 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 379731006401 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 379731006402 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 379731006403 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 379731006404 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 379731006405 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 379731006406 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 379731006407 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 379731006408 Walker A/P-loop; other site 379731006409 ATP binding site [chemical binding]; other site 379731006410 Q-loop/lid; other site 379731006411 ABC transporter signature motif; other site 379731006412 Walker B; other site 379731006413 D-loop; other site 379731006414 H-loop/switch region; other site 379731006415 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 379731006416 active site 379731006417 catalytic triad [active] 379731006418 oxyanion hole [active] 379731006419 switch loop; other site 379731006420 L,D-transpeptidase; Provisional; Region: PRK10260 379731006421 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 379731006422 Predicted acetyltransferase [General function prediction only]; Region: COG2388 379731006423 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 379731006424 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 379731006425 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 379731006426 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 379731006427 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 379731006428 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 379731006429 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731006430 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 379731006431 substrate binding site [chemical binding]; other site 379731006432 dimerization interface [polypeptide binding]; other site 379731006433 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 379731006434 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 379731006435 Active Sites [active] 379731006436 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 379731006437 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 379731006438 motif II; other site 379731006439 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 379731006440 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 379731006441 chorismate binding enzyme; Region: Chorismate_bind; cl10555 379731006442 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 379731006443 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 379731006444 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 379731006445 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 379731006446 Transcriptional regulators [Transcription]; Region: GntR; COG1802 379731006447 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 379731006448 DNA-binding site [nucleotide binding]; DNA binding site 379731006449 FCD domain; Region: FCD; pfam07729 379731006450 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 379731006451 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 379731006452 tetramer interface [polypeptide binding]; other site 379731006453 active site 379731006454 Mg2+/Mn2+ binding site [ion binding]; other site 379731006455 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 379731006456 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 379731006457 dimer interface [polypeptide binding]; other site 379731006458 active site 379731006459 citrylCoA binding site [chemical binding]; other site 379731006460 oxalacetate/citrate binding site [chemical binding]; other site 379731006461 coenzyme A binding site [chemical binding]; other site 379731006462 catalytic triad [active] 379731006463 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 379731006464 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 379731006465 substrate binding site [chemical binding]; other site 379731006466 ligand binding site [chemical binding]; other site 379731006467 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 379731006468 substrate binding site [chemical binding]; other site 379731006469 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 379731006470 PEP synthetase regulatory protein; Provisional; Region: PRK05339 379731006471 phosphoenolpyruvate synthase; Validated; Region: PRK06464 379731006472 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 379731006473 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 379731006474 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 379731006475 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 379731006476 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 379731006477 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 379731006478 Cl binding site [ion binding]; other site 379731006479 oligomer interface [polypeptide binding]; other site 379731006480 Mechanosensitive ion channel; Region: MS_channel; pfam00924 379731006481 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 379731006482 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 379731006483 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 379731006484 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 379731006485 DNA binding residues [nucleotide binding] 379731006486 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 379731006487 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731006488 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 379731006489 ligand binding site [chemical binding]; other site 379731006490 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 379731006491 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 379731006492 substrate binding site [chemical binding]; other site 379731006493 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 379731006494 substrate binding site [chemical binding]; other site 379731006495 ligand binding site [chemical binding]; other site 379731006496 Predicted Fe-S protein [General function prediction only]; Region: COG3313 379731006497 universal stress protein UspE; Provisional; Region: PRK11175 379731006498 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 379731006499 Ligand Binding Site [chemical binding]; other site 379731006500 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 379731006501 Ligand Binding Site [chemical binding]; other site 379731006502 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 379731006503 active site 379731006504 dinuclear metal binding site [ion binding]; other site 379731006505 dimerization interface [polypeptide binding]; other site 379731006506 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 379731006507 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 379731006508 putative active site [active] 379731006509 putative metal binding site [ion binding]; other site 379731006510 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 379731006511 substrate binding site [chemical binding]; other site 379731006512 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 379731006513 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 379731006514 active site 379731006515 HIGH motif; other site 379731006516 nucleotide binding site [chemical binding]; other site 379731006517 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 379731006518 KMSKS motif; other site 379731006519 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 379731006520 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 379731006521 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 379731006522 active site 379731006523 HIGH motif; other site 379731006524 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 379731006525 KMSKS motif; other site 379731006526 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 379731006527 tRNA binding surface [nucleotide binding]; other site 379731006528 anticodon binding site; other site 379731006529 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 379731006530 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 379731006531 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 379731006532 homodimer interface [polypeptide binding]; other site 379731006533 NADP binding site [chemical binding]; other site 379731006534 substrate binding site [chemical binding]; other site 379731006535 Transcriptional regulators [Transcription]; Region: FadR; COG2186 379731006536 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 379731006537 DNA-binding site [nucleotide binding]; DNA binding site 379731006538 FCD domain; Region: FCD; pfam07729 379731006539 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 379731006540 trigger factor; Provisional; Region: tig; PRK01490 379731006541 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 379731006542 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 379731006543 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 379731006544 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 379731006545 oligomer interface [polypeptide binding]; other site 379731006546 active site residues [active] 379731006547 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 379731006548 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 379731006549 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 379731006550 Walker A motif; other site 379731006551 ATP binding site [chemical binding]; other site 379731006552 Walker B motif; other site 379731006553 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 379731006554 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 379731006555 Found in ATP-dependent protease La (LON); Region: LON; smart00464 379731006556 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 379731006557 Walker A motif; other site 379731006558 ATP binding site [chemical binding]; other site 379731006559 Walker B motif; other site 379731006560 arginine finger; other site 379731006561 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 379731006562 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 379731006563 IHF dimer interface [polypeptide binding]; other site 379731006564 IHF - DNA interface [nucleotide binding]; other site 379731006565 periplasmic folding chaperone; Provisional; Region: PRK10788 379731006566 SurA N-terminal domain; Region: SurA_N_3; pfam13624 379731006567 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 379731006568 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 379731006569 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 379731006570 catalytic residue [active] 379731006571 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 379731006572 phosphate binding site [ion binding]; other site 379731006573 Predicted membrane protein [Function unknown]; Region: COG3748 379731006574 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 379731006575 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 379731006576 FeS/SAM binding site; other site 379731006577 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 379731006578 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 379731006579 PqqA family; Region: PqqA; pfam08042 379731006580 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 379731006581 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 379731006582 NAD(P) binding site [chemical binding]; other site 379731006583 catalytic residues [active] 379731006584 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 379731006585 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 379731006586 active site 379731006587 FMN binding site [chemical binding]; other site 379731006588 substrate binding site [chemical binding]; other site 379731006589 putative catalytic residue [active] 379731006590 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 379731006591 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 379731006592 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 379731006593 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 379731006594 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 379731006595 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 379731006596 FeS/SAM binding site; other site 379731006597 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 379731006598 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 379731006599 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 379731006600 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 379731006601 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 379731006602 putative active site [active] 379731006603 metal binding site [ion binding]; metal-binding site 379731006604 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 379731006605 PAS domain; Region: PAS_9; pfam13426 379731006606 putative active site [active] 379731006607 heme pocket [chemical binding]; other site 379731006608 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731006609 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 379731006610 dimer interface [polypeptide binding]; other site 379731006611 phosphorylation site [posttranslational modification] 379731006612 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 379731006613 ATP binding site [chemical binding]; other site 379731006614 Mg2+ binding site [ion binding]; other site 379731006615 G-X-G motif; other site 379731006616 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731006617 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731006618 active site 379731006619 phosphorylation site [posttranslational modification] 379731006620 intermolecular recognition site; other site 379731006621 dimerization interface [polypeptide binding]; other site 379731006622 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 379731006623 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 379731006624 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 379731006625 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 379731006626 response regulator; Provisional; Region: PRK09483 379731006627 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731006628 active site 379731006629 phosphorylation site [posttranslational modification] 379731006630 intermolecular recognition site; other site 379731006631 dimerization interface [polypeptide binding]; other site 379731006632 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 379731006633 DNA binding residues [nucleotide binding] 379731006634 dimerization interface [polypeptide binding]; other site 379731006635 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 379731006636 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 379731006637 active site 379731006638 catalytic site [active] 379731006639 putative DNA binding site [nucleotide binding]; other site 379731006640 GIY-YIG motif/motif A; other site 379731006641 metal binding site [ion binding]; metal-binding site 379731006642 UvrB/uvrC motif; Region: UVR; pfam02151 379731006643 Glutamate-cysteine ligase; Region: GshA; pfam08886 379731006644 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 379731006645 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 379731006646 DNA binding site [nucleotide binding] 379731006647 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 379731006648 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 379731006649 Predicted permease; Region: DUF318; cl17795 379731006650 Predicted permease; Region: DUF318; cl17795 379731006651 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 379731006652 arsenical-resistance protein; Region: acr3; TIGR00832 379731006653 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 379731006654 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 379731006655 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 379731006656 dimerization interface [polypeptide binding]; other site 379731006657 putative DNA binding site [nucleotide binding]; other site 379731006658 putative Zn2+ binding site [ion binding]; other site 379731006659 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 379731006660 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 379731006661 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 379731006662 active site 379731006663 hypothetical protein; Provisional; Region: PRK02237 379731006664 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 379731006665 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 379731006666 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 379731006667 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731006668 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731006669 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731006670 RES domain; Region: RES; smart00953 379731006671 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 379731006672 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 379731006673 DEAD_2; Region: DEAD_2; pfam06733 379731006674 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 379731006675 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 379731006676 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 379731006677 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 379731006678 FeS/SAM binding site; other site 379731006679 HemN C-terminal domain; Region: HemN_C; pfam06969 379731006680 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 379731006681 dimerization interface [polypeptide binding]; other site 379731006682 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731006683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731006684 dimer interface [polypeptide binding]; other site 379731006685 putative CheW interface [polypeptide binding]; other site 379731006686 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 379731006687 active site 379731006688 tetramer interface; other site 379731006689 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 379731006690 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 379731006691 active site 379731006692 metal binding site [ion binding]; metal-binding site 379731006693 glutathione reductase; Validated; Region: PRK06116 379731006694 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 379731006695 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 379731006696 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 379731006697 Protein of unknown function (DUF461); Region: DUF461; pfam04314 379731006698 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 379731006699 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 379731006700 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 379731006701 active site 379731006702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 379731006703 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 379731006704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731006705 Fusaric acid resistance protein family; Region: FUSC; pfam04632 379731006706 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 379731006707 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 379731006708 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 379731006709 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 379731006710 HlyD family secretion protein; Region: HlyD_3; pfam13437 379731006711 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 379731006712 transcriptional regulator; Provisional; Region: PRK10632 379731006713 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731006714 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 379731006715 putative effector binding pocket; other site 379731006716 dimerization interface [polypeptide binding]; other site 379731006717 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 379731006718 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 379731006719 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 379731006720 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 379731006721 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 379731006722 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 379731006723 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 379731006724 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 379731006725 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 379731006726 [2Fe-2S] cluster binding site [ion binding]; other site 379731006727 oxidoreductase; Provisional; Region: PRK06128 379731006728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731006729 NAD(P) binding site [chemical binding]; other site 379731006730 active site 379731006731 thiamine pyrophosphate protein; Provisional; Region: PRK08273 379731006732 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 379731006733 PYR/PP interface [polypeptide binding]; other site 379731006734 dimer interface [polypeptide binding]; other site 379731006735 tetramer interface [polypeptide binding]; other site 379731006736 TPP binding site [chemical binding]; other site 379731006737 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 379731006738 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 379731006739 TPP-binding site [chemical binding]; other site 379731006740 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 379731006741 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 379731006742 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 379731006743 active site 379731006744 DNA binding site [nucleotide binding] 379731006745 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 379731006746 DNA binding site [nucleotide binding] 379731006747 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 379731006748 nucleotide binding site [chemical binding]; other site 379731006749 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 379731006750 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 379731006751 dinuclear metal binding motif [ion binding]; other site 379731006752 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 379731006753 Mechanosensitive ion channel; Region: MS_channel; pfam00924 379731006754 Competence-damaged protein; Region: CinA; pfam02464 379731006755 glycogen synthase; Provisional; Region: glgA; PRK00654 379731006756 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 379731006757 ADP-binding pocket [chemical binding]; other site 379731006758 homodimer interface [polypeptide binding]; other site 379731006759 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 379731006760 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 379731006761 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 379731006762 catalytic site [active] 379731006763 active site 379731006764 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 379731006765 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 379731006766 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 379731006767 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 379731006768 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 379731006769 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 379731006770 active site 379731006771 catalytic site [active] 379731006772 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 379731006773 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 379731006774 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 379731006775 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 379731006776 active site 379731006777 catalytic site [active] 379731006778 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 379731006779 Peptidase family M23; Region: Peptidase_M23; pfam01551 379731006780 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 379731006781 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 379731006782 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 379731006783 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 379731006784 putative active site [active] 379731006785 metal binding site [ion binding]; metal-binding site 379731006786 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731006787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731006788 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 379731006789 putative effector binding pocket; other site 379731006790 dimerization interface [polypeptide binding]; other site 379731006791 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 379731006792 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 379731006793 NAD binding site [chemical binding]; other site 379731006794 catalytic Zn binding site [ion binding]; other site 379731006795 structural Zn binding site [ion binding]; other site 379731006796 Protein of unknown function DUF72; Region: DUF72; pfam01904 379731006797 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 379731006798 putative catalytic site [active] 379731006799 putative metal binding site [ion binding]; other site 379731006800 putative phosphate binding site [ion binding]; other site 379731006801 cardiolipin synthase 2; Provisional; Region: PRK11263 379731006802 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 379731006803 putative active site [active] 379731006804 catalytic site [active] 379731006805 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 379731006806 putative active site [active] 379731006807 catalytic site [active] 379731006808 Predicted integral membrane protein [Function unknown]; Region: COG0392 379731006809 glycogen branching enzyme; Provisional; Region: PRK05402 379731006810 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 379731006811 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 379731006812 active site 379731006813 catalytic site [active] 379731006814 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 379731006815 trehalose synthase; Region: treS_nterm; TIGR02456 379731006816 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 379731006817 active site 379731006818 catalytic site [active] 379731006819 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 379731006820 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 379731006821 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 379731006822 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 379731006823 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 379731006824 active site 379731006825 homodimer interface [polypeptide binding]; other site 379731006826 catalytic site [active] 379731006827 acceptor binding site [chemical binding]; other site 379731006828 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 379731006829 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 379731006830 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 379731006831 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 379731006832 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 379731006833 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 379731006834 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 379731006835 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 379731006836 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 379731006837 molybdopterin cofactor binding site; other site 379731006838 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 379731006839 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 379731006840 nucleotide binding site [chemical binding]; other site 379731006841 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 379731006842 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 379731006843 putative DNA binding site [nucleotide binding]; other site 379731006844 putative homodimer interface [polypeptide binding]; other site 379731006845 short chain dehydrogenase; Provisional; Region: PRK06701 379731006846 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 379731006847 NAD binding site [chemical binding]; other site 379731006848 metal binding site [ion binding]; metal-binding site 379731006849 active site 379731006850 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 379731006851 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 379731006852 putative NAD(P) binding site [chemical binding]; other site 379731006853 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731006854 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731006855 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 379731006856 putative substrate binding pocket [chemical binding]; other site 379731006857 putative dimerization interface [polypeptide binding]; other site 379731006858 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 379731006859 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 379731006860 HlyD family secretion protein; Region: HlyD_3; pfam13437 379731006861 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 379731006862 aminoglycoside resistance protein; Provisional; Region: PRK13746 379731006863 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 379731006864 active site 379731006865 NTP binding site [chemical binding]; other site 379731006866 metal binding triad [ion binding]; metal-binding site 379731006867 antibiotic binding site [chemical binding]; other site 379731006868 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 379731006869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 379731006870 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 379731006871 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 379731006872 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 379731006873 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 379731006874 Protein export membrane protein; Region: SecD_SecF; cl14618 379731006875 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 379731006876 Protein export membrane protein; Region: SecD_SecF; cl14618 379731006877 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 379731006878 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 379731006879 E3 interaction surface; other site 379731006880 lipoyl attachment site [posttranslational modification]; other site 379731006881 HlyD family secretion protein; Region: HlyD_3; pfam13437 379731006882 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 379731006883 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 379731006884 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 379731006885 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 379731006886 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 379731006887 dimer interface [polypeptide binding]; other site 379731006888 catalytic triad [active] 379731006889 peroxidatic and resolving cysteines [active] 379731006890 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 379731006891 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 379731006892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 379731006893 Family of unknown function (DUF490); Region: DUF490; pfam04357 379731006894 Family of unknown function (DUF490); Region: DUF490; pfam04357 379731006895 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 379731006896 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 379731006897 Surface antigen; Region: Bac_surface_Ag; pfam01103 379731006898 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 379731006899 Coenzyme A binding pocket [chemical binding]; other site 379731006900 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 379731006901 putative catalytic site [active] 379731006902 putative phosphate binding site [ion binding]; other site 379731006903 active site 379731006904 metal binding site A [ion binding]; metal-binding site 379731006905 DNA binding site [nucleotide binding] 379731006906 putative AP binding site [nucleotide binding]; other site 379731006907 putative metal binding site B [ion binding]; other site 379731006908 PBP superfamily domain; Region: PBP_like_2; cl17296 379731006909 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 379731006910 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731006911 ligand binding site [chemical binding]; other site 379731006912 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 379731006913 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 379731006914 putative substrate binding site [chemical binding]; other site 379731006915 putative ATP binding site [chemical binding]; other site 379731006916 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 379731006917 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 379731006918 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731006919 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731006920 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 379731006921 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 379731006922 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731006923 dimer interface [polypeptide binding]; other site 379731006924 conserved gate region; other site 379731006925 putative PBP binding loops; other site 379731006926 ABC-ATPase subunit interface; other site 379731006927 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 379731006928 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731006929 dimer interface [polypeptide binding]; other site 379731006930 conserved gate region; other site 379731006931 putative PBP binding loops; other site 379731006932 ABC-ATPase subunit interface; other site 379731006933 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 379731006934 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 379731006935 Walker A/P-loop; other site 379731006936 ATP binding site [chemical binding]; other site 379731006937 Q-loop/lid; other site 379731006938 ABC transporter signature motif; other site 379731006939 Walker B; other site 379731006940 D-loop; other site 379731006941 H-loop/switch region; other site 379731006942 TOBE domain; Region: TOBE_2; pfam08402 379731006943 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 379731006944 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 379731006945 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 379731006946 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 379731006947 N- and C-terminal domain interface [polypeptide binding]; other site 379731006948 D-xylulose kinase; Region: XylB; TIGR01312 379731006949 active site 379731006950 MgATP binding site [chemical binding]; other site 379731006951 catalytic site [active] 379731006952 metal binding site [ion binding]; metal-binding site 379731006953 xylulose binding site [chemical binding]; other site 379731006954 putative homodimer interface [polypeptide binding]; other site 379731006955 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 379731006956 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 379731006957 FAD binding site [chemical binding]; other site 379731006958 substrate binding site [chemical binding]; other site 379731006959 catalytic base [active] 379731006960 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 379731006961 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731006962 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 379731006963 substrate binding pocket [chemical binding]; other site 379731006964 dimerization interface [polypeptide binding]; other site 379731006965 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 379731006966 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 379731006967 putative ligand binding site [chemical binding]; other site 379731006968 putative dimerization interface [polypeptide binding]; other site 379731006969 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 379731006970 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 379731006971 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 379731006972 DctM-like transporters; Region: DctM; pfam06808 379731006973 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 379731006974 AAA domain; Region: AAA_33; pfam13671 379731006975 ATP-binding site [chemical binding]; other site 379731006976 Gluconate-6-phosphate binding site [chemical binding]; other site 379731006977 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 379731006978 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 379731006979 Predicted ATPase [General function prediction only]; Region: COG1485 379731006980 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 379731006981 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 379731006982 hydroxyglutarate oxidase; Provisional; Region: PRK11728 379731006983 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 379731006984 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 379731006985 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 379731006986 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731006987 Walker A/P-loop; other site 379731006988 ATP binding site [chemical binding]; other site 379731006989 Q-loop/lid; other site 379731006990 ABC transporter signature motif; other site 379731006991 Walker B; other site 379731006992 D-loop; other site 379731006993 H-loop/switch region; other site 379731006994 ABC transporter; Region: ABC_tran_2; pfam12848 379731006995 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 379731006996 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 379731006997 Predicted membrane protein [Function unknown]; Region: COG2323 379731006998 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 379731006999 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 379731007000 active site 379731007001 DNA binding site [nucleotide binding] 379731007002 Int/Topo IB signature motif; other site 379731007003 catalytic residues [active] 379731007004 PAS domain; Region: PAS_9; pfam13426 379731007005 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 379731007006 putative active site [active] 379731007007 heme pocket [chemical binding]; other site 379731007008 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731007009 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731007010 metal binding site [ion binding]; metal-binding site 379731007011 active site 379731007012 I-site; other site 379731007013 Response regulator receiver domain; Region: Response_reg; pfam00072 379731007014 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731007015 active site 379731007016 phosphorylation site [posttranslational modification] 379731007017 intermolecular recognition site; other site 379731007018 dimerization interface [polypeptide binding]; other site 379731007019 Transposase domain (DUF772); Region: DUF772; pfam05598 379731007020 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 379731007021 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 379731007022 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 379731007023 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 379731007024 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 379731007025 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 379731007026 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 379731007027 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 379731007028 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 379731007029 substrate binding pocket [chemical binding]; other site 379731007030 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 379731007031 B12 binding site [chemical binding]; other site 379731007032 cobalt ligand [ion binding]; other site 379731007033 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 379731007034 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 379731007035 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 379731007036 AAA domain; Region: AAA_28; pfam13521 379731007037 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 379731007038 EamA-like transporter family; Region: EamA; pfam00892 379731007039 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 379731007040 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731007041 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 379731007042 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 379731007043 FeS/SAM binding site; other site 379731007044 Leucine rich repeat; Region: LRR_8; pfam13855 379731007045 Leucine rich repeat; Region: LRR_8; pfam13855 379731007046 Leucine rich repeat; Region: LRR_8; pfam13855 379731007047 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 379731007048 Catalytic domain of Protein Kinases; Region: PKc; cd00180 379731007049 active site 379731007050 ATP binding site [chemical binding]; other site 379731007051 substrate binding site [chemical binding]; other site 379731007052 activation loop (A-loop); other site 379731007053 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 379731007054 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 379731007055 putative dimer interface [polypeptide binding]; other site 379731007056 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 379731007057 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 379731007058 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 379731007059 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 379731007060 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 379731007061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 379731007062 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 379731007063 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 379731007064 NADP binding site [chemical binding]; other site 379731007065 dimer interface [polypeptide binding]; other site 379731007066 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 379731007067 putative inner membrane peptidase; Provisional; Region: PRK11778 379731007068 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 379731007069 tandem repeat interface [polypeptide binding]; other site 379731007070 oligomer interface [polypeptide binding]; other site 379731007071 active site residues [active] 379731007072 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 379731007073 SCP-2 sterol transfer family; Region: SCP2; pfam02036 379731007074 Phosphotransferase enzyme family; Region: APH; pfam01636 379731007075 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 379731007076 putative active site [active] 379731007077 putative substrate binding site [chemical binding]; other site 379731007078 ATP binding site [chemical binding]; other site 379731007079 short chain dehydrogenase; Provisional; Region: PRK07035 379731007080 classical (c) SDRs; Region: SDR_c; cd05233 379731007081 NAD(P) binding site [chemical binding]; other site 379731007082 active site 379731007083 exoribonuclease R; Provisional; Region: PRK11642 379731007084 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 379731007085 hypothetical protein; Provisional; Region: PRK10621 379731007086 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 379731007087 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 379731007088 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 379731007089 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 379731007090 putative NADH binding site [chemical binding]; other site 379731007091 putative active site [active] 379731007092 nudix motif; other site 379731007093 putative metal binding site [ion binding]; other site 379731007094 enoyl-CoA hydratase; Provisional; Region: PRK06142 379731007095 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 379731007096 substrate binding site [chemical binding]; other site 379731007097 oxyanion hole (OAH) forming residues; other site 379731007098 trimer interface [polypeptide binding]; other site 379731007099 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 379731007100 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 379731007101 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 379731007102 homodimer interface [polypeptide binding]; other site 379731007103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731007104 catalytic residue [active] 379731007105 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 379731007106 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 379731007107 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 379731007108 active site 379731007109 catalytic site [active] 379731007110 substrate binding site [chemical binding]; other site 379731007111 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 379731007112 RNA/DNA hybrid binding site [nucleotide binding]; other site 379731007113 active site 379731007114 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 379731007115 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 379731007116 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 379731007117 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 379731007118 N-acetyl-D-glucosamine binding site [chemical binding]; other site 379731007119 catalytic residue [active] 379731007120 Immunoglobulin domain; Region: Ig; cl11960 379731007121 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 379731007122 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 379731007123 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 379731007124 HDOD domain; Region: HDOD; pfam08668 379731007125 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 379731007126 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 379731007127 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 379731007128 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 379731007129 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 379731007130 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731007131 dimer interface [polypeptide binding]; other site 379731007132 conserved gate region; other site 379731007133 ABC-ATPase subunit interface; other site 379731007134 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 379731007135 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731007136 dimer interface [polypeptide binding]; other site 379731007137 conserved gate region; other site 379731007138 putative PBP binding loops; other site 379731007139 ABC-ATPase subunit interface; other site 379731007140 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 379731007141 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 379731007142 Walker A/P-loop; other site 379731007143 ATP binding site [chemical binding]; other site 379731007144 Q-loop/lid; other site 379731007145 ABC transporter signature motif; other site 379731007146 Walker B; other site 379731007147 D-loop; other site 379731007148 H-loop/switch region; other site 379731007149 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 379731007150 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 379731007151 Walker A/P-loop; other site 379731007152 ATP binding site [chemical binding]; other site 379731007153 Q-loop/lid; other site 379731007154 ABC transporter signature motif; other site 379731007155 Walker B; other site 379731007156 D-loop; other site 379731007157 H-loop/switch region; other site 379731007158 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 379731007159 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 379731007160 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 379731007161 NAD binding site [chemical binding]; other site 379731007162 homotetramer interface [polypeptide binding]; other site 379731007163 homodimer interface [polypeptide binding]; other site 379731007164 substrate binding site [chemical binding]; other site 379731007165 active site 379731007166 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 379731007167 classical (c) SDRs; Region: SDR_c; cd05233 379731007168 NAD(P) binding site [chemical binding]; other site 379731007169 active site 379731007170 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 379731007171 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731007172 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731007173 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 379731007174 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 379731007175 dimer interface [polypeptide binding]; other site 379731007176 Trp docking motif [polypeptide binding]; other site 379731007177 active site 379731007178 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 379731007179 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 379731007180 putative ligand binding site [chemical binding]; other site 379731007181 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 379731007182 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 379731007183 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 379731007184 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 379731007185 substrate binding pocket [chemical binding]; other site 379731007186 membrane-bound complex binding site; other site 379731007187 hinge residues; other site 379731007188 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 379731007189 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 379731007190 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 379731007191 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 379731007192 dimer interface [polypeptide binding]; other site 379731007193 Trp docking motif [polypeptide binding]; other site 379731007194 active site 379731007195 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 379731007196 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 379731007197 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 379731007198 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 379731007199 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 379731007200 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 379731007201 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 379731007202 PAS domain; Region: PAS_9; pfam13426 379731007203 putative active site [active] 379731007204 heme pocket [chemical binding]; other site 379731007205 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 379731007206 PAS domain; Region: PAS_9; pfam13426 379731007207 putative active site [active] 379731007208 heme pocket [chemical binding]; other site 379731007209 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731007210 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731007211 dimer interface [polypeptide binding]; other site 379731007212 putative CheW interface [polypeptide binding]; other site 379731007213 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 379731007214 active site 379731007215 catalytic site [active] 379731007216 substrate binding site [chemical binding]; other site 379731007217 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 379731007218 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 379731007219 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 379731007220 N-terminal plug; other site 379731007221 ligand-binding site [chemical binding]; other site 379731007222 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 379731007223 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731007224 active site 379731007225 phosphorylation site [posttranslational modification] 379731007226 intermolecular recognition site; other site 379731007227 dimerization interface [polypeptide binding]; other site 379731007228 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 379731007229 DNA binding residues [nucleotide binding] 379731007230 dimerization interface [polypeptide binding]; other site 379731007231 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 379731007232 dimerization interface [polypeptide binding]; other site 379731007233 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 379731007234 Histidine kinase; Region: HisKA_3; pfam07730 379731007235 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 379731007236 ATP binding site [chemical binding]; other site 379731007237 Mg2+ binding site [ion binding]; other site 379731007238 G-X-G motif; other site 379731007239 Cache domain; Region: Cache_1; pfam02743 379731007240 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 379731007241 dimerization interface [polypeptide binding]; other site 379731007242 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731007243 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731007244 dimer interface [polypeptide binding]; other site 379731007245 putative CheW interface [polypeptide binding]; other site 379731007246 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 379731007247 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 379731007248 ligand binding site [chemical binding]; other site 379731007249 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 379731007250 Sel1-like repeats; Region: SEL1; smart00671 379731007251 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 379731007252 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 379731007253 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 379731007254 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 379731007255 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 379731007256 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731007257 Walker A/P-loop; other site 379731007258 ATP binding site [chemical binding]; other site 379731007259 Q-loop/lid; other site 379731007260 ABC transporter signature motif; other site 379731007261 Walker B; other site 379731007262 D-loop; other site 379731007263 H-loop/switch region; other site 379731007264 alcohol ABC transporter, permease protein; Region: phenyl_ABC_PedC; TIGR03861 379731007265 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 379731007266 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 379731007267 active site residue [active] 379731007268 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 379731007269 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731007270 active site 379731007271 phosphorylation site [posttranslational modification] 379731007272 intermolecular recognition site; other site 379731007273 dimerization interface [polypeptide binding]; other site 379731007274 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 379731007275 DNA binding residues [nucleotide binding] 379731007276 dimerization interface [polypeptide binding]; other site 379731007277 siroheme synthase; Provisional; Region: cysG; PRK10637 379731007278 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 379731007279 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 379731007280 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 379731007281 active site 379731007282 SAM binding site [chemical binding]; other site 379731007283 homodimer interface [polypeptide binding]; other site 379731007284 seryl-tRNA synthetase; Provisional; Region: PRK05431 379731007285 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 379731007286 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 379731007287 dimer interface [polypeptide binding]; other site 379731007288 active site 379731007289 motif 1; other site 379731007290 motif 2; other site 379731007291 motif 3; other site 379731007292 camphor resistance protein CrcB; Provisional; Region: PRK14234 379731007293 recombination factor protein RarA; Reviewed; Region: PRK13342 379731007294 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 379731007295 Walker A motif; other site 379731007296 ATP binding site [chemical binding]; other site 379731007297 Walker B motif; other site 379731007298 arginine finger; other site 379731007299 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 379731007300 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 379731007301 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 379731007302 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 379731007303 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 379731007304 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 379731007305 thioredoxin reductase; Provisional; Region: PRK10262 379731007306 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 379731007307 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 379731007308 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 379731007309 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 379731007310 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 379731007311 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 379731007312 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 379731007313 rRNA binding site [nucleotide binding]; other site 379731007314 predicted 30S ribosome binding site; other site 379731007315 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 379731007316 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 379731007317 Walker A motif; other site 379731007318 ATP binding site [chemical binding]; other site 379731007319 Walker B motif; other site 379731007320 arginine finger; other site 379731007321 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 379731007322 Walker A motif; other site 379731007323 ATP binding site [chemical binding]; other site 379731007324 Walker B motif; other site 379731007325 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 379731007326 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 379731007327 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 379731007328 DNA-binding site [nucleotide binding]; DNA binding site 379731007329 RNA-binding motif; other site 379731007330 isocitrate dehydrogenase; Validated; Region: PRK07362 379731007331 isocitrate dehydrogenase; Reviewed; Region: PRK07006 379731007332 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 379731007333 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 379731007334 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 379731007335 nudix motif; other site 379731007336 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 379731007337 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 379731007338 putative lysogenization regulator; Reviewed; Region: PRK00218 379731007339 adenylosuccinate lyase; Provisional; Region: PRK09285 379731007340 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 379731007341 tetramer interface [polypeptide binding]; other site 379731007342 active site 379731007343 Uncharacterized conserved protein [Function unknown]; Region: COG2850 379731007344 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 379731007345 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 379731007346 Coenzyme A binding pocket [chemical binding]; other site 379731007347 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 379731007348 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 379731007349 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 379731007350 tetramer interface [polypeptide binding]; other site 379731007351 active site 379731007352 Mg2+/Mn2+ binding site [ion binding]; other site 379731007353 isocitrate lyase; Region: PLN02892 379731007354 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 379731007355 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 379731007356 Domain of unknown function DUF20; Region: UPF0118; pfam01594 379731007357 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 379731007358 Transposase; Region: HTH_Tnp_1; pfam01527 379731007359 putative transposase OrfB; Reviewed; Region: PHA02517 379731007360 HTH-like domain; Region: HTH_21; pfam13276 379731007361 Integrase core domain; Region: rve; pfam00665 379731007362 Integrase core domain; Region: rve_2; pfam13333 379731007363 Predicted permease [General function prediction only]; Region: COG2056 379731007364 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 379731007365 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 379731007366 active site 379731007367 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 379731007368 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 379731007369 active site 379731007370 putative substrate binding pocket [chemical binding]; other site 379731007371 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 379731007372 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 379731007373 S-adenosylmethionine binding site [chemical binding]; other site 379731007374 phosphoglycolate phosphatase; Provisional; Region: PRK13222 379731007375 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 379731007376 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 379731007377 motif II; other site 379731007378 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 379731007379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731007380 NAD(P) binding site [chemical binding]; other site 379731007381 active site 379731007382 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 379731007383 pseudouridine synthase; Region: TIGR00093 379731007384 probable active site [active] 379731007385 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 379731007386 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 379731007387 active site 379731007388 intersubunit interface [polypeptide binding]; other site 379731007389 catalytic residue [active] 379731007390 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 379731007391 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 379731007392 putative active site [active] 379731007393 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 379731007394 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 379731007395 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 379731007396 HemK family putative methylases; Region: hemK_fam; TIGR00536 379731007397 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 379731007398 S-adenosylmethionine binding site [chemical binding]; other site 379731007399 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 379731007400 Isochorismatase family; Region: Isochorismatase; pfam00857 379731007401 catalytic triad [active] 379731007402 conserved cis-peptide bond; other site 379731007403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 379731007404 Smr domain; Region: Smr; pfam01713 379731007405 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 379731007406 homodecamer interface [polypeptide binding]; other site 379731007407 GTP cyclohydrolase I; Provisional; Region: PLN03044 379731007408 active site 379731007409 putative catalytic site residues [active] 379731007410 zinc binding site [ion binding]; other site 379731007411 GTP-CH-I/GFRP interaction surface; other site 379731007412 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 379731007413 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 379731007414 putative C-terminal domain interface [polypeptide binding]; other site 379731007415 putative GSH binding site (G-site) [chemical binding]; other site 379731007416 putative dimer interface [polypeptide binding]; other site 379731007417 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 379731007418 N-terminal domain interface [polypeptide binding]; other site 379731007419 dimer interface [polypeptide binding]; other site 379731007420 substrate binding pocket (H-site) [chemical binding]; other site 379731007421 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 379731007422 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 379731007423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731007424 homodimer interface [polypeptide binding]; other site 379731007425 catalytic residue [active] 379731007426 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 379731007427 MarR family; Region: MarR_2; pfam12802 379731007428 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 379731007429 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 379731007430 RNA binding site [nucleotide binding]; other site 379731007431 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 379731007432 RNA binding site [nucleotide binding]; other site 379731007433 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 379731007434 RNA binding site [nucleotide binding]; other site 379731007435 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 379731007436 RNA binding site [nucleotide binding]; other site 379731007437 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 379731007438 RNA binding site [nucleotide binding]; other site 379731007439 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 379731007440 RNA binding site [nucleotide binding]; other site 379731007441 cytidylate kinase; Provisional; Region: cmk; PRK00023 379731007442 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 379731007443 CMP-binding site; other site 379731007444 The sites determining sugar specificity; other site 379731007445 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 379731007446 prephenate dehydrogenase; Validated; Region: PRK08507 379731007447 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 379731007448 hinge; other site 379731007449 active site 379731007450 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 379731007451 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 379731007452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731007453 homodimer interface [polypeptide binding]; other site 379731007454 catalytic residue [active] 379731007455 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 379731007456 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 379731007457 Prephenate dehydratase; Region: PDT; pfam00800 379731007458 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 379731007459 putative L-Phe binding site [chemical binding]; other site 379731007460 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 379731007461 homodimer interface [polypeptide binding]; other site 379731007462 substrate-cofactor binding pocket; other site 379731007463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731007464 catalytic residue [active] 379731007465 DNA gyrase subunit A; Validated; Region: PRK05560 379731007466 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 379731007467 CAP-like domain; other site 379731007468 active site 379731007469 primary dimer interface [polypeptide binding]; other site 379731007470 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 379731007471 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 379731007472 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 379731007473 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 379731007474 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 379731007475 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 379731007476 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 379731007477 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 379731007478 Uncharacterized conserved protein [Function unknown]; Region: COG4544 379731007479 DNA Polymerase Y-family; Region: PolY_like; cd03468 379731007480 active site 379731007481 DNA binding site [nucleotide binding] 379731007482 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 379731007483 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 379731007484 putative active site [active] 379731007485 putative PHP Thumb interface [polypeptide binding]; other site 379731007486 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 379731007487 generic binding surface I; other site 379731007488 generic binding surface II; other site 379731007489 D-cysteine desulfhydrase; Validated; Region: PRK03910 379731007490 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 379731007491 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 379731007492 catalytic residue [active] 379731007493 cystine transporter subunit; Provisional; Region: PRK11260 379731007494 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 379731007495 substrate binding pocket [chemical binding]; other site 379731007496 membrane-bound complex binding site; other site 379731007497 hinge residues; other site 379731007498 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 379731007499 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731007500 dimer interface [polypeptide binding]; other site 379731007501 conserved gate region; other site 379731007502 putative PBP binding loops; other site 379731007503 ABC-ATPase subunit interface; other site 379731007504 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 379731007505 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 379731007506 Walker A/P-loop; other site 379731007507 ATP binding site [chemical binding]; other site 379731007508 Q-loop/lid; other site 379731007509 ABC transporter signature motif; other site 379731007510 Walker B; other site 379731007511 D-loop; other site 379731007512 H-loop/switch region; other site 379731007513 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 379731007514 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 379731007515 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 379731007516 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 379731007517 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 379731007518 TrkA-N domain; Region: TrkA_N; pfam02254 379731007519 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 379731007520 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 379731007521 Clp amino terminal domain; Region: Clp_N; pfam02861 379731007522 Clp amino terminal domain; Region: Clp_N; pfam02861 379731007523 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 379731007524 Walker A motif; other site 379731007525 ATP binding site [chemical binding]; other site 379731007526 Walker B motif; other site 379731007527 arginine finger; other site 379731007528 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 379731007529 Walker A motif; other site 379731007530 ATP binding site [chemical binding]; other site 379731007531 Walker B motif; other site 379731007532 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 379731007533 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 379731007534 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 379731007535 Walker A motif; other site 379731007536 ATP binding site [chemical binding]; other site 379731007537 Walker B motif; other site 379731007538 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 379731007539 Walker A motif; other site 379731007540 ATP binding site [chemical binding]; other site 379731007541 Walker B motif; other site 379731007542 Response regulator receiver domain; Region: Response_reg; pfam00072 379731007543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731007544 active site 379731007545 phosphorylation site [posttranslational modification] 379731007546 intermolecular recognition site; other site 379731007547 dimerization interface [polypeptide binding]; other site 379731007548 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 379731007549 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 379731007550 DNA binding residues [nucleotide binding] 379731007551 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 379731007552 IHF dimer interface [polypeptide binding]; other site 379731007553 IHF - DNA interface [nucleotide binding]; other site 379731007554 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 379731007555 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 379731007556 putative tRNA-binding site [nucleotide binding]; other site 379731007557 B3/4 domain; Region: B3_4; pfam03483 379731007558 tRNA synthetase B5 domain; Region: B5; pfam03484 379731007559 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 379731007560 dimer interface [polypeptide binding]; other site 379731007561 motif 1; other site 379731007562 motif 3; other site 379731007563 motif 2; other site 379731007564 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 379731007565 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 379731007566 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 379731007567 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 379731007568 dimer interface [polypeptide binding]; other site 379731007569 motif 1; other site 379731007570 active site 379731007571 motif 2; other site 379731007572 motif 3; other site 379731007573 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 379731007574 23S rRNA binding site [nucleotide binding]; other site 379731007575 L21 binding site [polypeptide binding]; other site 379731007576 L13 binding site [polypeptide binding]; other site 379731007577 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 379731007578 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 379731007579 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 379731007580 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 379731007581 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 379731007582 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 379731007583 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 379731007584 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 379731007585 active site 379731007586 dimer interface [polypeptide binding]; other site 379731007587 motif 1; other site 379731007588 motif 2; other site 379731007589 motif 3; other site 379731007590 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 379731007591 anticodon binding site; other site 379731007592 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 379731007593 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 379731007594 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 379731007595 putative active site [active] 379731007596 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 379731007597 TPR motif; other site 379731007598 TPR repeat; Region: TPR_11; pfam13414 379731007599 binding surface 379731007600 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 379731007601 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 379731007602 Acyltransferase family; Region: Acyl_transf_3; pfam01757 379731007603 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 379731007604 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 379731007605 GTP binding site; other site 379731007606 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 379731007607 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 379731007608 outer membrane porin, OprD family; Region: OprD; pfam03573 379731007609 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 379731007610 Predicted membrane protein [Function unknown]; Region: COG5393 379731007611 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 379731007612 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 379731007613 Zn2+ binding site [ion binding]; other site 379731007614 Mg2+ binding site [ion binding]; other site 379731007615 hypothetical protein; Provisional; Region: PRK11702 379731007616 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 379731007617 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 379731007618 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 379731007619 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 379731007620 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 379731007621 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 379731007622 S-adenosylmethionine binding site [chemical binding]; other site 379731007623 Ribosome modulation factor; Region: RMF; pfam04957 379731007624 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 379731007625 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 379731007626 quinone interaction residues [chemical binding]; other site 379731007627 active site 379731007628 catalytic residues [active] 379731007629 FMN binding site [chemical binding]; other site 379731007630 substrate binding site [chemical binding]; other site 379731007631 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 379731007632 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 379731007633 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 379731007634 MoxR-like ATPases [General function prediction only]; Region: COG0714 379731007635 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 379731007636 Walker A motif; other site 379731007637 ATP binding site [chemical binding]; other site 379731007638 Walker B motif; other site 379731007639 arginine finger; other site 379731007640 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 379731007641 Protein of unknown function DUF58; Region: DUF58; pfam01882 379731007642 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 379731007643 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 379731007644 VWA BatA type: 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...; Region: vWA_BatA_type; cd01467 379731007645 metal ion-dependent adhesion site (MIDAS); other site 379731007646 von Willebrand factor type A domain; Region: VWA_2; pfam13519 379731007647 metal ion-dependent adhesion site (MIDAS); other site 379731007648 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 379731007649 TPR motif; other site 379731007650 binding surface 379731007651 TPR repeat; Region: TPR_11; pfam13414 379731007652 Oxygen tolerance; Region: BatD; pfam13584 379731007653 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 379731007654 NMT1-like family; Region: NMT1_2; pfam13379 379731007655 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 379731007656 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731007657 active site 379731007658 phosphorylation site [posttranslational modification] 379731007659 intermolecular recognition site; other site 379731007660 dimerization interface [polypeptide binding]; other site 379731007661 ANTAR domain; Region: ANTAR; pfam03861 379731007662 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 379731007663 active site 379731007664 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 379731007665 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 379731007666 putative substrate binding site [chemical binding]; other site 379731007667 putative ATP binding site [chemical binding]; other site 379731007668 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 379731007669 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731007670 putative substrate translocation pore; other site 379731007671 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 379731007672 active site 379731007673 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 379731007674 Catalytic domain of Protein Kinases; Region: PKc; cd00180 379731007675 active site 379731007676 ATP binding site [chemical binding]; other site 379731007677 substrate binding site [chemical binding]; other site 379731007678 activation loop (A-loop); other site 379731007679 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 379731007680 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 379731007681 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 379731007682 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 379731007683 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 379731007684 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 379731007685 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 379731007686 [2Fe-2S] cluster binding site [ion binding]; other site 379731007687 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 379731007688 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 379731007689 [4Fe-4S] binding site [ion binding]; other site 379731007690 molybdopterin cofactor binding site; other site 379731007691 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 379731007692 molybdopterin cofactor binding site; other site 379731007693 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 379731007694 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 379731007695 active site 379731007696 SAM binding site [chemical binding]; other site 379731007697 homodimer interface [polypeptide binding]; other site 379731007698 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 379731007699 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 379731007700 aminopeptidase N; Provisional; Region: pepN; PRK14015 379731007701 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 379731007702 active site 379731007703 Zn binding site [ion binding]; other site 379731007704 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 379731007705 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 379731007706 Rhomboid family; Region: Rhomboid; pfam01694 379731007707 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 379731007708 active site 379731007709 metal binding site [ion binding]; metal-binding site 379731007710 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 379731007711 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 379731007712 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 379731007713 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 379731007714 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 379731007715 Chromate transporter; Region: Chromate_transp; pfam02417 379731007716 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 379731007717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731007718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731007719 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 379731007720 putative effector binding pocket; other site 379731007721 dimerization interface [polypeptide binding]; other site 379731007722 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 379731007723 spermidine synthase; Provisional; Region: PRK00811 379731007724 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 379731007725 S-adenosylmethionine binding site [chemical binding]; other site 379731007726 AlkA N-terminal domain; Region: AlkA_N; pfam06029 379731007727 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 379731007728 minor groove reading motif; other site 379731007729 helix-hairpin-helix signature motif; other site 379731007730 active site 379731007731 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 379731007732 catalytic core [active] 379731007733 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 379731007734 Cupin domain; Region: Cupin_2; cl17218 379731007735 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731007736 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731007737 putative substrate translocation pore; other site 379731007738 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 379731007739 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 379731007740 Tetramer interface [polypeptide binding]; other site 379731007741 active site 379731007742 FMN-binding site [chemical binding]; other site 379731007743 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 379731007744 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 379731007745 trimer interface; other site 379731007746 sugar binding site [chemical binding]; other site 379731007747 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 379731007748 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 379731007749 Walker A/P-loop; other site 379731007750 ATP binding site [chemical binding]; other site 379731007751 Q-loop/lid; other site 379731007752 ABC transporter signature motif; other site 379731007753 Walker B; other site 379731007754 D-loop; other site 379731007755 H-loop/switch region; other site 379731007756 TOBE domain; Region: TOBE; pfam03459 379731007757 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 379731007758 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731007759 dimer interface [polypeptide binding]; other site 379731007760 conserved gate region; other site 379731007761 putative PBP binding loops; other site 379731007762 ABC-ATPase subunit interface; other site 379731007763 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731007764 dimer interface [polypeptide binding]; other site 379731007765 conserved gate region; other site 379731007766 putative PBP binding loops; other site 379731007767 ABC-ATPase subunit interface; other site 379731007768 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 379731007769 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 379731007770 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 379731007771 dimerization interface [polypeptide binding]; other site 379731007772 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 379731007773 ATP binding site [chemical binding]; other site 379731007774 Mg2+ binding site [ion binding]; other site 379731007775 G-X-G motif; other site 379731007776 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 379731007777 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731007778 active site 379731007779 phosphorylation site [posttranslational modification] 379731007780 intermolecular recognition site; other site 379731007781 dimerization interface [polypeptide binding]; other site 379731007782 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 379731007783 DNA binding site [nucleotide binding] 379731007784 glucokinase, proteobacterial type; Region: glk; TIGR00749 379731007785 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 379731007786 nucleotide binding site [chemical binding]; other site 379731007787 phosphogluconate dehydratase; Validated; Region: PRK09054 379731007788 6-phosphogluconate dehydratase; Region: edd; TIGR01196 379731007789 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 379731007790 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 379731007791 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 379731007792 active site 379731007793 HIGH motif; other site 379731007794 dimer interface [polypeptide binding]; other site 379731007795 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 379731007796 active site 379731007797 KMSKS motif; other site 379731007798 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 379731007799 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 379731007800 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 379731007801 active site 379731007802 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 379731007803 YciI-like protein; Reviewed; Region: PRK11370 379731007804 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 379731007805 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731007806 active site 379731007807 phosphorylation site [posttranslational modification] 379731007808 intermolecular recognition site; other site 379731007809 dimerization interface [polypeptide binding]; other site 379731007810 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 379731007811 DNA binding site [nucleotide binding] 379731007812 synthase/transferase; Region: PLN02316 379731007813 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731007814 HAMP domain; Region: HAMP; pfam00672 379731007815 dimerization interface [polypeptide binding]; other site 379731007816 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 379731007817 dimer interface [polypeptide binding]; other site 379731007818 phosphorylation site [posttranslational modification] 379731007819 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 379731007820 ATP binding site [chemical binding]; other site 379731007821 G-X-G motif; other site 379731007822 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 379731007823 putative FMN binding site [chemical binding]; other site 379731007824 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 379731007825 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 379731007826 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 379731007827 Protein of unknown function (DUF808); Region: DUF808; pfam05661 379731007828 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 379731007829 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 379731007830 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731007831 Protein of unknown function (DUF962); Region: DUF962; cl01879 379731007832 MASE2 domain; Region: MASE2; pfam05230 379731007833 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 379731007834 cyclase homology domain; Region: CHD; cd07302 379731007835 nucleotidyl binding site; other site 379731007836 metal binding site [ion binding]; metal-binding site 379731007837 dimer interface [polypeptide binding]; other site 379731007838 Cupin domain; Region: Cupin_2; cl17218 379731007839 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 379731007840 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731007841 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731007842 EamA-like transporter family; Region: EamA; pfam00892 379731007843 Rdx family; Region: Rdx; cl01407 379731007844 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 379731007845 hypothetical protein; Provisional; Region: PRK10279 379731007846 active site 379731007847 nucleophile elbow; other site 379731007848 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 379731007849 Surface antigen; Region: Bac_surface_Ag; pfam01103 379731007850 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 379731007851 MarR family; Region: MarR_2; pfam12802 379731007852 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 379731007853 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 379731007854 ATP binding site [chemical binding]; other site 379731007855 putative Mg++ binding site [ion binding]; other site 379731007856 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 379731007857 nucleotide binding region [chemical binding]; other site 379731007858 ATP-binding site [chemical binding]; other site 379731007859 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 379731007860 HRDC domain; Region: HRDC; pfam00570 379731007861 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 379731007862 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 379731007863 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 379731007864 DTW domain; Region: DTW; cl01221 379731007865 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 379731007866 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 379731007867 putative C-terminal domain interface [polypeptide binding]; other site 379731007868 putative GSH binding site (G-site) [chemical binding]; other site 379731007869 putative dimer interface [polypeptide binding]; other site 379731007870 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 379731007871 putative N-terminal domain interface [polypeptide binding]; other site 379731007872 putative dimer interface [polypeptide binding]; other site 379731007873 putative substrate binding pocket (H-site) [chemical binding]; other site 379731007874 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 379731007875 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 379731007876 EamA-like transporter family; Region: EamA; pfam00892 379731007877 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 379731007878 EamA-like transporter family; Region: EamA; pfam00892 379731007879 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 379731007880 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 379731007881 dimer interface [polypeptide binding]; other site 379731007882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731007883 catalytic residue [active] 379731007884 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 379731007885 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 379731007886 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 379731007887 Walker A motif; other site 379731007888 ATP binding site [chemical binding]; other site 379731007889 Walker B motif; other site 379731007890 arginine finger; other site 379731007891 Uncharacterized conserved protein [Function unknown]; Region: COG3791 379731007892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 379731007893 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 379731007894 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 379731007895 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 379731007896 putative active site [active] 379731007897 putative dimer interface [polypeptide binding]; other site 379731007898 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 379731007899 Ligand Binding Site [chemical binding]; other site 379731007900 ABC transporter ATPase component; Reviewed; Region: PRK11147 379731007901 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 379731007902 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 379731007903 ABC transporter; Region: ABC_tran_2; pfam12848 379731007904 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 379731007905 lytic murein transglycosylase; Provisional; Region: PRK11619 379731007906 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 379731007907 N-acetyl-D-glucosamine binding site [chemical binding]; other site 379731007908 catalytic residue [active] 379731007909 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 379731007910 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 379731007911 MOSC domain; Region: MOSC; pfam03473 379731007912 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 379731007913 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731007914 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731007915 active site 379731007916 phosphorylation site [posttranslational modification] 379731007917 intermolecular recognition site; other site 379731007918 dimerization interface [polypeptide binding]; other site 379731007919 lipid kinase; Reviewed; Region: PRK13054 379731007920 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 379731007921 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 379731007922 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 379731007923 Low molecular weight phosphatase family; Region: LMWPc; cd00115 379731007924 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 379731007925 active site 379731007926 tyrosine kinase; Provisional; Region: PRK11519 379731007927 Chain length determinant protein; Region: Wzz; pfam02706 379731007928 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 379731007929 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 379731007930 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 379731007931 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 379731007932 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 379731007933 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 379731007934 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 379731007935 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 379731007936 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 379731007937 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 379731007938 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 379731007939 Probable Catalytic site; other site 379731007940 metal-binding site 379731007941 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 379731007942 polysaccharide export protein Wza; Provisional; Region: PRK15078 379731007943 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 379731007944 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 379731007945 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 379731007946 dimer interface [polypeptide binding]; other site 379731007947 active site 379731007948 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 379731007949 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 379731007950 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 379731007951 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 379731007952 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 379731007953 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 379731007954 IHF dimer interface [polypeptide binding]; other site 379731007955 IHF - DNA interface [nucleotide binding]; other site 379731007956 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 379731007957 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 379731007958 ATP binding site [chemical binding]; other site 379731007959 Mg++ binding site [ion binding]; other site 379731007960 motif III; other site 379731007961 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 379731007962 nucleotide binding region [chemical binding]; other site 379731007963 ATP-binding site [chemical binding]; other site 379731007964 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 379731007965 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 379731007966 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731007967 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731007968 dimer interface [polypeptide binding]; other site 379731007969 putative CheW interface [polypeptide binding]; other site 379731007970 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 379731007971 S-adenosylmethionine binding site [chemical binding]; other site 379731007972 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 379731007973 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 379731007974 transmembrane helices; other site 379731007975 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 379731007976 elongation factor P; Validated; Region: PRK00529 379731007977 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 379731007978 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 379731007979 RNA binding site [nucleotide binding]; other site 379731007980 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 379731007981 RNA binding site [nucleotide binding]; other site 379731007982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 379731007983 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 379731007984 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 379731007985 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 379731007986 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 379731007987 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 379731007988 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731007989 ligand binding site [chemical binding]; other site 379731007990 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 379731007991 ZIP Zinc transporter; Region: Zip; pfam02535 379731007992 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 379731007993 HlyD family secretion protein; Region: HlyD_3; pfam13437 379731007994 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 379731007995 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 379731007996 FtsX-like permease family; Region: FtsX; pfam02687 379731007997 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 379731007998 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 379731007999 Walker A/P-loop; other site 379731008000 ATP binding site [chemical binding]; other site 379731008001 Q-loop/lid; other site 379731008002 ABC transporter signature motif; other site 379731008003 Walker B; other site 379731008004 D-loop; other site 379731008005 H-loop/switch region; other site 379731008006 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 379731008007 Putative phosphatase (DUF442); Region: DUF442; cl17385 379731008008 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 379731008009 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 379731008010 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 379731008011 high affinity sulphate transporter 1; Region: sulP; TIGR00815 379731008012 Sulfate transporter family; Region: Sulfate_transp; pfam00916 379731008013 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 379731008014 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 379731008015 active site residue [active] 379731008016 Predicted transporter component [General function prediction only]; Region: COG2391 379731008017 Sulphur transport; Region: Sulf_transp; pfam04143 379731008018 Predicted transporter component [General function prediction only]; Region: COG2391 379731008019 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 379731008020 dimerization interface [polypeptide binding]; other site 379731008021 putative DNA binding site [nucleotide binding]; other site 379731008022 putative Zn2+ binding site [ion binding]; other site 379731008023 Uncharacterized family 4; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_4; cd10161 379731008024 putative homodimer interface [polypeptide binding]; other site 379731008025 putative homotetramer interface [polypeptide binding]; other site 379731008026 putative metal binding site [ion binding]; other site 379731008027 putative homodimer-homodimer interface [polypeptide binding]; other site 379731008028 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 379731008029 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 379731008030 C-terminal domain interface [polypeptide binding]; other site 379731008031 GSH binding site (G-site) [chemical binding]; other site 379731008032 dimer interface [polypeptide binding]; other site 379731008033 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 379731008034 N-terminal domain interface [polypeptide binding]; other site 379731008035 dimer interface [polypeptide binding]; other site 379731008036 substrate binding pocket (H-site) [chemical binding]; other site 379731008037 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 379731008038 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 379731008039 Walker A motif; other site 379731008040 ATP binding site [chemical binding]; other site 379731008041 Walker B motif; other site 379731008042 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 379731008043 catalytic residues [active] 379731008044 dimer interface [polypeptide binding]; other site 379731008045 methionine sulfoxide reductase B; Provisional; Region: PRK00222 379731008046 SelR domain; Region: SelR; pfam01641 379731008047 aminotransferase AlaT; Validated; Region: PRK09265 379731008048 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 379731008049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731008050 homodimer interface [polypeptide binding]; other site 379731008051 catalytic residue [active] 379731008052 heat shock protein HtpX; Provisional; Region: PRK05457 379731008053 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 379731008054 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 379731008055 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 379731008056 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731008057 Response regulator receiver domain; Region: Response_reg; pfam00072 379731008058 intermolecular recognition site; other site 379731008059 active site 379731008060 dimerization interface [polypeptide binding]; other site 379731008061 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 379731008062 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 379731008063 Walker A motif; other site 379731008064 ATP binding site [chemical binding]; other site 379731008065 Walker B motif; other site 379731008066 arginine finger; other site 379731008067 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 379731008068 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 379731008069 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 379731008070 dimer interface [polypeptide binding]; other site 379731008071 phosphorylation site [posttranslational modification] 379731008072 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 379731008073 ATP binding site [chemical binding]; other site 379731008074 Mg2+ binding site [ion binding]; other site 379731008075 G-X-G motif; other site 379731008076 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 379731008077 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 379731008078 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 379731008079 Walker A motif; other site 379731008080 ATP binding site [chemical binding]; other site 379731008081 Walker B motif; other site 379731008082 arginine finger; other site 379731008083 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 379731008084 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 379731008085 TPR repeat; Region: TPR_11; pfam13414 379731008086 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 379731008087 binding surface 379731008088 TPR motif; other site 379731008089 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 379731008090 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 379731008091 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 379731008092 catalytic residues [active] 379731008093 central insert; other site 379731008094 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 379731008095 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 379731008096 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 379731008097 heme exporter protein CcmC; Region: ccmC; TIGR01191 379731008098 heme exporter protein CcmB; Region: ccmB; TIGR01190 379731008099 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 379731008100 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 379731008101 Walker A/P-loop; other site 379731008102 ATP binding site [chemical binding]; other site 379731008103 Q-loop/lid; other site 379731008104 ABC transporter signature motif; other site 379731008105 Walker B; other site 379731008106 D-loop; other site 379731008107 H-loop/switch region; other site 379731008108 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 379731008109 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 379731008110 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 379731008111 active site residue [active] 379731008112 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 379731008113 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 379731008114 putative CheA interaction surface; other site 379731008115 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 379731008116 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 379731008117 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 379731008118 P-loop; other site 379731008119 Magnesium ion binding site [ion binding]; other site 379731008120 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 379731008121 Magnesium ion binding site [ion binding]; other site 379731008122 flagellar motor protein MotD; Reviewed; Region: PRK09038 379731008123 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 379731008124 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731008125 ligand binding site [chemical binding]; other site 379731008126 flagellar motor protein; Reviewed; Region: motC; PRK09109 379731008127 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 379731008128 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 379731008129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731008130 active site 379731008131 phosphorylation site [posttranslational modification] 379731008132 intermolecular recognition site; other site 379731008133 dimerization interface [polypeptide binding]; other site 379731008134 CheB methylesterase; Region: CheB_methylest; pfam01339 379731008135 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 379731008136 putative binding surface; other site 379731008137 active site 379731008138 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 379731008139 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 379731008140 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 379731008141 ATP binding site [chemical binding]; other site 379731008142 Mg2+ binding site [ion binding]; other site 379731008143 G-X-G motif; other site 379731008144 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 379731008145 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 379731008146 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 379731008147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731008148 active site 379731008149 phosphorylation site [posttranslational modification] 379731008150 intermolecular recognition site; other site 379731008151 dimerization interface [polypeptide binding]; other site 379731008152 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 379731008153 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 379731008154 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 379731008155 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 379731008156 DNA binding residues [nucleotide binding] 379731008157 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 379731008158 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 379731008159 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 379731008160 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 379731008161 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 379731008162 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 379731008163 FHIPEP family; Region: FHIPEP; pfam00771 379731008164 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 379731008165 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 379731008166 E-class dimer interface [polypeptide binding]; other site 379731008167 P-class dimer interface [polypeptide binding]; other site 379731008168 active site 379731008169 Cu2+ binding site [ion binding]; other site 379731008170 Zn2+ binding site [ion binding]; other site 379731008171 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 379731008172 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 379731008173 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 379731008174 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 379731008175 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 379731008176 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 379731008177 flagellar motor switch protein; Validated; Region: fliN; PRK05698 379731008178 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 379731008179 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 379731008180 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 379731008181 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 379731008182 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 379731008183 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 379731008184 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 379731008185 putative binding surface; other site 379731008186 active site 379731008187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731008188 active site 379731008189 phosphorylation site [posttranslational modification] 379731008190 intermolecular recognition site; other site 379731008191 dimerization interface [polypeptide binding]; other site 379731008192 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 379731008193 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 379731008194 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 379731008195 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 379731008196 anti sigma factor interaction site; other site 379731008197 regulatory phosphorylation site [posttranslational modification]; other site 379731008198 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 379731008199 Flagellar FliJ protein; Region: FliJ; pfam02050 379731008200 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 379731008201 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 379731008202 Walker A motif/ATP binding site; other site 379731008203 Walker B motif; other site 379731008204 flagellar assembly protein H; Validated; Region: fliH; PRK05687 379731008205 Flagellar assembly protein FliH; Region: FliH; pfam02108 379731008206 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 379731008207 MgtE intracellular N domain; Region: MgtE_N; smart00924 379731008208 FliG C-terminal domain; Region: FliG_C; pfam01706 379731008209 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 379731008210 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 379731008211 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 379731008212 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 379731008213 benzoate transporter; Region: benE; TIGR00843 379731008214 Benzoate membrane transport protein; Region: BenE; pfam03594 379731008215 short chain dehydrogenase; Provisional; Region: PRK06172 379731008216 classical (c) SDRs; Region: SDR_c; cd05233 379731008217 NAD(P) binding site [chemical binding]; other site 379731008218 active site 379731008219 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 379731008220 Prostaglandin dehydrogenases; Region: PGDH; cd05288 379731008221 NAD(P) binding site [chemical binding]; other site 379731008222 substrate binding site [chemical binding]; other site 379731008223 dimer interface [polypeptide binding]; other site 379731008224 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 379731008225 active site 379731008226 dimer interface [polypeptide binding]; other site 379731008227 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 379731008228 CHASE4 domain; Region: CHASE4; pfam05228 379731008229 PAS domain S-box; Region: sensory_box; TIGR00229 379731008230 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 379731008231 putative active site [active] 379731008232 heme pocket [chemical binding]; other site 379731008233 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731008234 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731008235 metal binding site [ion binding]; metal-binding site 379731008236 active site 379731008237 I-site; other site 379731008238 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 379731008239 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 379731008240 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 379731008241 DNA-binding site [nucleotide binding]; DNA binding site 379731008242 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 379731008243 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731008244 homodimer interface [polypeptide binding]; other site 379731008245 catalytic residue [active] 379731008246 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 379731008247 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 379731008248 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731008249 ligand binding site [chemical binding]; other site 379731008250 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 379731008251 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 379731008252 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 379731008253 substrate binding pocket [chemical binding]; other site 379731008254 membrane-bound complex binding site; other site 379731008255 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 379731008256 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 379731008257 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 379731008258 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 379731008259 Electron transfer flavoprotein domain; Region: ETF; pfam01012 379731008260 Ligand binding site [chemical binding]; other site 379731008261 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 379731008262 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 379731008263 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 379731008264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 379731008265 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 379731008266 Radical SAM superfamily; Region: Radical_SAM; pfam04055 379731008267 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 379731008268 FeS/SAM binding site; other site 379731008269 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 379731008270 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731008271 WHG domain; Region: WHG; pfam13305 379731008272 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 379731008273 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 379731008274 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 379731008275 catalytic residue [active] 379731008276 aromatic amino acid transporter; Provisional; Region: PRK10238 379731008277 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 379731008278 active site 379731008279 PilZ domain; Region: PilZ; cl01260 379731008280 DNA polymerase III subunit delta'; Validated; Region: PRK05707 379731008281 thymidylate kinase; Validated; Region: tmk; PRK00698 379731008282 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 379731008283 TMP-binding site; other site 379731008284 ATP-binding site [chemical binding]; other site 379731008285 YceG-like family; Region: YceG; pfam02618 379731008286 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 379731008287 dimerization interface [polypeptide binding]; other site 379731008288 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 379731008289 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 379731008290 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731008291 catalytic residue [active] 379731008292 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 379731008293 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 379731008294 dimer interface [polypeptide binding]; other site 379731008295 active site 379731008296 acyl carrier protein; Provisional; Region: acpP; PRK00982 379731008297 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 379731008298 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 379731008299 NAD(P) binding site [chemical binding]; other site 379731008300 homotetramer interface [polypeptide binding]; other site 379731008301 homodimer interface [polypeptide binding]; other site 379731008302 active site 379731008303 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 379731008304 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 379731008305 putative phosphate acyltransferase; Provisional; Region: PRK05331 379731008306 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 379731008307 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 379731008308 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 379731008309 active site 379731008310 dimer interface [polypeptide binding]; other site 379731008311 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 379731008312 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 379731008313 tandem repeat interface [polypeptide binding]; other site 379731008314 oligomer interface [polypeptide binding]; other site 379731008315 active site residues [active] 379731008316 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 379731008317 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 379731008318 motif II; other site 379731008319 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 379731008320 active site 379731008321 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 379731008322 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 379731008323 homodimer interface [polypeptide binding]; other site 379731008324 oligonucleotide binding site [chemical binding]; other site 379731008325 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 379731008326 FAD binding domain; Region: FAD_binding_4; pfam01565 379731008327 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 379731008328 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 379731008329 Low molecular weight phosphatase family; Region: LMWPc; cd00115 379731008330 active site 379731008331 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 379731008332 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 379731008333 Ligand binding site; other site 379731008334 oligomer interface; other site 379731008335 Uncharacterized conserved protein [Function unknown]; Region: COG2835 379731008336 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 379731008337 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 379731008338 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 379731008339 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 379731008340 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 379731008341 ComEC family competence protein; Provisional; Region: PRK11539 379731008342 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 379731008343 Competence protein; Region: Competence; pfam03772 379731008344 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 379731008345 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 379731008346 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 379731008347 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 379731008348 FtsX-like permease family; Region: FtsX; pfam02687 379731008349 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 379731008350 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 379731008351 Walker A/P-loop; other site 379731008352 ATP binding site [chemical binding]; other site 379731008353 Q-loop/lid; other site 379731008354 ABC transporter signature motif; other site 379731008355 Walker B; other site 379731008356 D-loop; other site 379731008357 H-loop/switch region; other site 379731008358 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 379731008359 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 379731008360 FtsX-like permease family; Region: FtsX; pfam02687 379731008361 PilZ domain; Region: PilZ; pfam07238 379731008362 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 379731008363 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 379731008364 active site 379731008365 catalytic site [active] 379731008366 metal binding site [ion binding]; metal-binding site 379731008367 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 379731008368 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 379731008369 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 379731008370 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 379731008371 Protein of unknown function (DUF539); Region: DUF539; cl01129 379731008372 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 379731008373 ApbE family; Region: ApbE; pfam02424 379731008374 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 379731008375 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 379731008376 catalytic loop [active] 379731008377 iron binding site [ion binding]; other site 379731008378 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 379731008379 FAD binding pocket [chemical binding]; other site 379731008380 FAD binding motif [chemical binding]; other site 379731008381 phosphate binding motif [ion binding]; other site 379731008382 beta-alpha-beta structure motif; other site 379731008383 NAD binding pocket [chemical binding]; other site 379731008384 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 379731008385 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 379731008386 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 379731008387 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 379731008388 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 379731008389 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 379731008390 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 379731008391 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 379731008392 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 379731008393 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 379731008394 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 379731008395 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 379731008396 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 379731008397 ATP binding site [chemical binding]; other site 379731008398 putative Mg++ binding site [ion binding]; other site 379731008399 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 379731008400 nucleotide binding region [chemical binding]; other site 379731008401 ATP-binding site [chemical binding]; other site 379731008402 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 379731008403 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 379731008404 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 379731008405 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 379731008406 ATP binding site [chemical binding]; other site 379731008407 putative Mg++ binding site [ion binding]; other site 379731008408 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 379731008409 nucleotide binding region [chemical binding]; other site 379731008410 ATP-binding site [chemical binding]; other site 379731008411 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 379731008412 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 379731008413 ATP-dependent DNA ligase; Validated; Region: PRK09247 379731008414 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 379731008415 active site 379731008416 DNA binding site [nucleotide binding] 379731008417 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 379731008418 DNA binding site [nucleotide binding] 379731008419 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 379731008420 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 379731008421 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 379731008422 ATP binding site [chemical binding]; other site 379731008423 putative Mg++ binding site [ion binding]; other site 379731008424 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 379731008425 nucleotide binding region [chemical binding]; other site 379731008426 ATP-binding site [chemical binding]; other site 379731008427 DEAD/H associated; Region: DEAD_assoc; pfam08494 379731008428 metallophosphoesterase, DNA ligase-associated; Region: P_estr_lig_assc; TIGR04123 379731008429 active site 379731008430 metal binding site [ion binding]; metal-binding site 379731008431 Erythromycin esterase; Region: Erythro_esteras; pfam05139 379731008432 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 379731008433 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 379731008434 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 379731008435 homodimer interface [polypeptide binding]; other site 379731008436 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 379731008437 homodimer interface [polypeptide binding]; other site 379731008438 active site 379731008439 putative chemical substrate binding site [chemical binding]; other site 379731008440 metal binding site [ion binding]; metal-binding site 379731008441 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 379731008442 HD domain; Region: HD_4; pfam13328 379731008443 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 379731008444 synthetase active site [active] 379731008445 NTP binding site [chemical binding]; other site 379731008446 metal binding site [ion binding]; metal-binding site 379731008447 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 379731008448 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 379731008449 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 379731008450 TRAM domain; Region: TRAM; pfam01938 379731008451 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 379731008452 S-adenosylmethionine binding site [chemical binding]; other site 379731008453 cysteine synthase B; Region: cysM; TIGR01138 379731008454 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 379731008455 dimer interface [polypeptide binding]; other site 379731008456 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731008457 catalytic residue [active] 379731008458 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 379731008459 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731008460 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 379731008461 putative dimerization interface [polypeptide binding]; other site 379731008462 UPF0126 domain; Region: UPF0126; pfam03458 379731008463 Predicted membrane protein [Function unknown]; Region: COG2860 379731008464 UPF0126 domain; Region: UPF0126; pfam03458 379731008465 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 379731008466 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 379731008467 dimerization interface [polypeptide binding]; other site 379731008468 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 379731008469 dimer interface [polypeptide binding]; other site 379731008470 phosphorylation site [posttranslational modification] 379731008471 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 379731008472 ATP binding site [chemical binding]; other site 379731008473 Mg2+ binding site [ion binding]; other site 379731008474 G-X-G motif; other site 379731008475 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731008476 active site 379731008477 phosphorylation site [posttranslational modification] 379731008478 intermolecular recognition site; other site 379731008479 dimerization interface [polypeptide binding]; other site 379731008480 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 379731008481 putative binding surface; other site 379731008482 active site 379731008483 Uncharacterized conserved protein [Function unknown]; Region: COG4121 379731008484 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 379731008485 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 379731008486 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 379731008487 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 379731008488 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731008489 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731008490 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 379731008491 dimerization interface [polypeptide binding]; other site 379731008492 helicase 45; Provisional; Region: PTZ00424 379731008493 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 379731008494 ATP binding site [chemical binding]; other site 379731008495 Mg++ binding site [ion binding]; other site 379731008496 motif III; other site 379731008497 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 379731008498 nucleotide binding region [chemical binding]; other site 379731008499 ATP-binding site [chemical binding]; other site 379731008500 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 379731008501 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731008502 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731008503 LysR substrate binding domain; Region: LysR_substrate; pfam03466 379731008504 dimerization interface [polypeptide binding]; other site 379731008505 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 379731008506 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 379731008507 substrate binding site [chemical binding]; other site 379731008508 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 379731008509 dinuclear metal binding motif [ion binding]; other site 379731008510 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 379731008511 Protein of unknown function, DUF482; Region: DUF482; pfam04339 379731008512 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 379731008513 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 379731008514 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 379731008515 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 379731008516 putative ATP binding site [chemical binding]; other site 379731008517 putative substrate interface [chemical binding]; other site 379731008518 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 379731008519 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 379731008520 metal binding site [ion binding]; metal-binding site 379731008521 dimer interface [polypeptide binding]; other site 379731008522 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 379731008523 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 379731008524 S-adenosylmethionine binding site [chemical binding]; other site 379731008525 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 379731008526 DNA-binding site [nucleotide binding]; DNA binding site 379731008527 RNA-binding motif; other site 379731008528 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 379731008529 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 379731008530 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 379731008531 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 379731008532 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 379731008533 Walker A/P-loop; other site 379731008534 ATP binding site [chemical binding]; other site 379731008535 Q-loop/lid; other site 379731008536 ABC transporter signature motif; other site 379731008537 Walker B; other site 379731008538 D-loop; other site 379731008539 H-loop/switch region; other site 379731008540 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 379731008541 Coenzyme A binding pocket [chemical binding]; other site 379731008542 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 379731008543 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 379731008544 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 379731008545 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 379731008546 S-adenosylmethionine binding site [chemical binding]; other site 379731008547 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 379731008548 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 379731008549 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 379731008550 putative acyl-acceptor binding pocket; other site 379731008551 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 379731008552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 379731008553 Coenzyme A binding pocket [chemical binding]; other site 379731008554 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 379731008555 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 379731008556 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 379731008557 dimerization domain [polypeptide binding]; other site 379731008558 dimer interface [polypeptide binding]; other site 379731008559 catalytic residues [active] 379731008560 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 379731008561 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 379731008562 catalytic residues [active] 379731008563 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 379731008564 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 379731008565 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 379731008566 DsbD alpha interface [polypeptide binding]; other site 379731008567 catalytic residues [active] 379731008568 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 379731008569 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731008570 active site 379731008571 phosphorylation site [posttranslational modification] 379731008572 intermolecular recognition site; other site 379731008573 dimerization interface [polypeptide binding]; other site 379731008574 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 379731008575 DNA binding site [nucleotide binding] 379731008576 sensor protein QseC; Provisional; Region: PRK10337 379731008577 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 379731008578 dimer interface [polypeptide binding]; other site 379731008579 phosphorylation site [posttranslational modification] 379731008580 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 379731008581 ATP binding site [chemical binding]; other site 379731008582 Mg2+ binding site [ion binding]; other site 379731008583 G-X-G motif; other site 379731008584 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 379731008585 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 379731008586 dimerization interface [polypeptide binding]; other site 379731008587 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 379731008588 dimer interface [polypeptide binding]; other site 379731008589 phosphorylation site [posttranslational modification] 379731008590 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 379731008591 ATP binding site [chemical binding]; other site 379731008592 G-X-G motif; other site 379731008593 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 379731008594 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731008595 active site 379731008596 phosphorylation site [posttranslational modification] 379731008597 intermolecular recognition site; other site 379731008598 dimerization interface [polypeptide binding]; other site 379731008599 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 379731008600 DNA binding site [nucleotide binding] 379731008601 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 379731008602 metal-binding site [ion binding] 379731008603 Predicted metal-binding protein [General function prediction only]; Region: COG3019 379731008604 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 379731008605 Multicopper oxidase; Region: Cu-oxidase; pfam00394 379731008606 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 379731008607 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 379731008608 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 379731008609 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 379731008610 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 379731008611 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 379731008612 Coenzyme A binding pocket [chemical binding]; other site 379731008613 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 379731008614 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 379731008615 Pirin-related protein [General function prediction only]; Region: COG1741 379731008616 Pirin; Region: Pirin; pfam02678 379731008617 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 379731008618 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 379731008619 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 379731008620 Ligand binding site; other site 379731008621 DXD motif; other site 379731008622 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 379731008623 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 379731008624 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 379731008625 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 379731008626 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 379731008627 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 379731008628 LrgB-like family; Region: LrgB; pfam04172 379731008629 LrgA family; Region: LrgA; cl00608 379731008630 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 379731008631 4Fe-4S binding domain; Region: Fer4_5; pfam12801 379731008632 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 379731008633 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 379731008634 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 379731008635 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 379731008636 DNA-binding site [nucleotide binding]; DNA binding site 379731008637 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 379731008638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731008639 homodimer interface [polypeptide binding]; other site 379731008640 catalytic residue [active] 379731008641 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 379731008642 PAS domain; Region: PAS_9; pfam13426 379731008643 putative active site [active] 379731008644 heme pocket [chemical binding]; other site 379731008645 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 379731008646 GAF domain; Region: GAF; pfam01590 379731008647 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731008648 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731008649 metal binding site [ion binding]; metal-binding site 379731008650 active site 379731008651 I-site; other site 379731008652 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 379731008653 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 379731008654 putative C-terminal domain interface [polypeptide binding]; other site 379731008655 putative GSH binding site (G-site) [chemical binding]; other site 379731008656 putative dimer interface [polypeptide binding]; other site 379731008657 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 379731008658 N-terminal domain interface [polypeptide binding]; other site 379731008659 dimer interface [polypeptide binding]; other site 379731008660 substrate binding pocket (H-site) [chemical binding]; other site 379731008661 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 379731008662 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731008663 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 379731008664 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 379731008665 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 379731008666 HlyD family secretion protein; Region: HlyD_3; pfam13437 379731008667 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 379731008668 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731008669 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 379731008670 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 379731008671 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 379731008672 Protein of unknown function DUF72; Region: DUF72; cl00777 379731008673 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 379731008674 Glycoprotease family; Region: Peptidase_M22; pfam00814 379731008675 adenylate kinase; Reviewed; Region: adk; PRK00279 379731008676 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 379731008677 AMP-binding site [chemical binding]; other site 379731008678 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 379731008679 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 379731008680 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 379731008681 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 379731008682 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 379731008683 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731008684 ligand binding site [chemical binding]; other site 379731008685 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 379731008686 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 379731008687 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 379731008688 putative anticodon binding site; other site 379731008689 dimer interface [polypeptide binding]; other site 379731008690 tRNA synthetases class II (D, K and N); Region: tRNA-synt_2; pfam00152 379731008691 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 379731008692 motif 1; other site 379731008693 active site 379731008694 motif 2; other site 379731008695 motif 3; other site 379731008696 This domain is found in peptide chain release factors; Region: PCRF; smart00937 379731008697 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 379731008698 RF-1 domain; Region: RF-1; pfam00472 379731008699 Protein of unknown function (DUF533); Region: DUF533; pfam04391 379731008700 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 379731008701 putative metal binding site [ion binding]; other site 379731008702 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 379731008703 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 379731008704 active site 379731008705 FMN binding site [chemical binding]; other site 379731008706 substrate binding site [chemical binding]; other site 379731008707 homotetramer interface [polypeptide binding]; other site 379731008708 catalytic residue [active] 379731008709 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 379731008710 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 379731008711 putative [Fe4-S4] binding site [ion binding]; other site 379731008712 putative molybdopterin cofactor binding site [chemical binding]; other site 379731008713 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 379731008714 putative molybdopterin cofactor binding site; other site 379731008715 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 379731008716 DHH family; Region: DHH; pfam01368 379731008717 DHHA1 domain; Region: DHHA1; pfam02272 379731008718 MarR family; Region: MarR_2; cl17246 379731008719 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 379731008720 putative active site [active] 379731008721 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 379731008722 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 379731008723 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 379731008724 hypothetical protein; Provisional; Region: PRK05463 379731008725 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 379731008726 YaeQ protein; Region: YaeQ; pfam07152 379731008727 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731008728 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731008729 metal binding site [ion binding]; metal-binding site 379731008730 active site 379731008731 I-site; other site 379731008732 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 379731008733 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 379731008734 heme binding site [chemical binding]; other site 379731008735 ferroxidase pore; other site 379731008736 ferroxidase diiron center [ion binding]; other site 379731008737 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 379731008738 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 379731008739 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 379731008740 recombination associated protein; Reviewed; Region: rdgC; PRK00321 379731008741 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 379731008742 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 379731008743 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 379731008744 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 379731008745 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 379731008746 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 379731008747 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 379731008748 Na binding site [ion binding]; other site 379731008749 PAS domain; Region: PAS; smart00091 379731008750 PAS fold; Region: PAS_7; pfam12860 379731008751 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731008752 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 379731008753 dimer interface [polypeptide binding]; other site 379731008754 phosphorylation site [posttranslational modification] 379731008755 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 379731008756 ATP binding site [chemical binding]; other site 379731008757 Mg2+ binding site [ion binding]; other site 379731008758 G-X-G motif; other site 379731008759 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731008760 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731008761 active site 379731008762 phosphorylation site [posttranslational modification] 379731008763 intermolecular recognition site; other site 379731008764 dimerization interface [polypeptide binding]; other site 379731008765 Predicted membrane protein [Function unknown]; Region: COG3174 379731008766 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 379731008767 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 379731008768 RmuC family; Region: RmuC; pfam02646 379731008769 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 379731008770 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 379731008771 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 379731008772 DNA polymerase II; Reviewed; Region: PRK05762 379731008773 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 379731008774 active site 379731008775 catalytic site [active] 379731008776 substrate binding site [chemical binding]; other site 379731008777 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 379731008778 active site 379731008779 metal-binding site 379731008780 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 379731008781 ATP binding site [chemical binding]; other site 379731008782 active site 379731008783 substrate binding site [chemical binding]; other site 379731008784 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 379731008785 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 379731008786 dihydrodipicolinate synthase; Region: dapA; TIGR00674 379731008787 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 379731008788 dimer interface [polypeptide binding]; other site 379731008789 active site 379731008790 catalytic residue [active] 379731008791 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 379731008792 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 379731008793 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 379731008794 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 379731008795 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 379731008796 catalytic triad [active] 379731008797 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 379731008798 Domain of unknown function DUF20; Region: UPF0118; pfam01594 379731008799 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 379731008800 CPxP motif; other site 379731008801 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 379731008802 Peptidase family M48; Region: Peptidase_M48; cl12018 379731008803 quinolinate synthetase; Provisional; Region: PRK09375 379731008804 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 379731008805 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 379731008806 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 379731008807 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 379731008808 Ligand Binding Site [chemical binding]; other site 379731008809 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 379731008810 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 379731008811 FeS/SAM binding site; other site 379731008812 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 379731008813 Tetratricopeptide repeat; Region: TPR_6; pfam13174 379731008814 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 379731008815 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731008816 ligand binding site [chemical binding]; other site 379731008817 translocation protein TolB; Provisional; Region: tolB; PRK00178 379731008818 TolB amino-terminal domain; Region: TolB_N; pfam04052 379731008819 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 379731008820 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 379731008821 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 379731008822 TolA protein; Region: tolA_full; TIGR02794 379731008823 TolA protein; Region: tolA_full; TIGR02794 379731008824 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 379731008825 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 379731008826 TolR protein; Region: tolR; TIGR02801 379731008827 TolQ protein; Region: tolQ; TIGR02796 379731008828 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 379731008829 active site 379731008830 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 379731008831 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 379731008832 Walker A motif; other site 379731008833 ATP binding site [chemical binding]; other site 379731008834 Walker B motif; other site 379731008835 arginine finger; other site 379731008836 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 379731008837 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 379731008838 RuvA N terminal domain; Region: RuvA_N; pfam01330 379731008839 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 379731008840 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 379731008841 active site 379731008842 putative DNA-binding cleft [nucleotide binding]; other site 379731008843 dimer interface [polypeptide binding]; other site 379731008844 hypothetical protein; Validated; Region: PRK00110 379731008845 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 379731008846 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 379731008847 dimer interface [polypeptide binding]; other site 379731008848 anticodon binding site; other site 379731008849 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 379731008850 homodimer interface [polypeptide binding]; other site 379731008851 motif 1; other site 379731008852 active site 379731008853 motif 2; other site 379731008854 GAD domain; Region: GAD; pfam02938 379731008855 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 379731008856 active site 379731008857 motif 3; other site 379731008858 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 379731008859 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 379731008860 dimerization interface [polypeptide binding]; other site 379731008861 DPS ferroxidase diiron center [ion binding]; other site 379731008862 ion pore; other site 379731008863 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 379731008864 DNA-binding site [nucleotide binding]; DNA binding site 379731008865 RNA-binding motif; other site 379731008866 hypothetical protein; Provisional; Region: PRK00295 379731008867 HIT domain; Region: HIT; pfam01230 379731008868 outer membrane porin, OprD family; Region: OprD; pfam03573 379731008869 prolyl-tRNA synthetase; Provisional; Region: PRK09194 379731008870 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 379731008871 dimer interface [polypeptide binding]; other site 379731008872 motif 1; other site 379731008873 active site 379731008874 motif 2; other site 379731008875 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 379731008876 putative deacylase active site [active] 379731008877 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 379731008878 active site 379731008879 motif 3; other site 379731008880 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 379731008881 anticodon binding site; other site 379731008882 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 379731008883 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 379731008884 N-acetyl-D-glucosamine binding site [chemical binding]; other site 379731008885 catalytic residue [active] 379731008886 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 379731008887 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 379731008888 catalytic residues [active] 379731008889 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 379731008890 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 379731008891 ArsC family; Region: ArsC; pfam03960 379731008892 catalytic residues [active] 379731008893 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 379731008894 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 379731008895 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 379731008896 DNA replication initiation factor; Validated; Region: PRK05642 379731008897 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 379731008898 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 379731008899 Domain of unknown function DUF20; Region: UPF0118; pfam01594 379731008900 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 379731008901 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 379731008902 dimerization interface [polypeptide binding]; other site 379731008903 putative ATP binding site [chemical binding]; other site 379731008904 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 379731008905 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 379731008906 active site 379731008907 substrate binding site [chemical binding]; other site 379731008908 cosubstrate binding site; other site 379731008909 catalytic site [active] 379731008910 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 379731008911 Predicted membrane protein [Function unknown]; Region: COG3650 379731008912 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 379731008913 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 379731008914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731008915 homodimer interface [polypeptide binding]; other site 379731008916 catalytic residue [active] 379731008917 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 379731008918 catalytic residues [active] 379731008919 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 379731008920 ArsC family; Region: ArsC; pfam03960 379731008921 putative catalytic residues [active] 379731008922 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 379731008923 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 379731008924 putative trimer interface [polypeptide binding]; other site 379731008925 putative CoA binding site [chemical binding]; other site 379731008926 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 379731008927 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 379731008928 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 379731008929 catalytic residue [active] 379731008930 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 379731008931 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 379731008932 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 379731008933 dimer interface [polypeptide binding]; other site 379731008934 active site 379731008935 CoA binding pocket [chemical binding]; other site 379731008936 Cytochrome c [Energy production and conversion]; Region: COG3258 379731008937 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 379731008938 Cytochrome c; Region: Cytochrom_C; cl11414 379731008939 Cytochrome c; Region: Cytochrom_C; cl11414 379731008940 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 379731008941 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 379731008942 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 379731008943 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 379731008944 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 379731008945 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 379731008946 putative deacylase active site [active] 379731008947 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 379731008948 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 379731008949 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 379731008950 THF binding site; other site 379731008951 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 379731008952 substrate binding site [chemical binding]; other site 379731008953 THF binding site; other site 379731008954 zinc-binding site [ion binding]; other site 379731008955 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 379731008956 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 379731008957 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731008958 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 379731008959 putative dimerization interface [polypeptide binding]; other site 379731008960 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 379731008961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731008962 NAD(P) binding site [chemical binding]; other site 379731008963 active site 379731008964 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 379731008965 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 379731008966 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 379731008967 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 379731008968 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 379731008969 DNA binding residues [nucleotide binding] 379731008970 dimerization interface [polypeptide binding]; other site 379731008971 curli assembly protein CsgE; Provisional; Region: PRK10386 379731008972 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 379731008973 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 379731008974 Curlin associated repeat; Region: Curlin_rpt; pfam07012 379731008975 Curlin associated repeat; Region: Curlin_rpt; pfam07012 379731008976 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 379731008977 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 379731008978 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 379731008979 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731008980 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 379731008981 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731008982 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731008983 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 379731008984 dimerization interface [polypeptide binding]; other site 379731008985 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 379731008986 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 379731008987 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 379731008988 S-adenosylmethionine binding site [chemical binding]; other site 379731008989 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 379731008990 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 379731008991 Beta-Casp domain; Region: Beta-Casp; smart01027 379731008992 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 379731008993 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 379731008994 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 379731008995 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 379731008996 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 379731008997 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 379731008998 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 379731008999 putative NAD(P) binding site [chemical binding]; other site 379731009000 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 379731009001 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 379731009002 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 379731009003 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 379731009004 Sulfate transporter family; Region: Sulfate_transp; pfam00916 379731009005 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 379731009006 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 379731009007 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 379731009008 Acid Phosphatase; Region: Acid_PPase; cl17256 379731009009 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 379731009010 Homeodomain-like domain; Region: HTH_23; pfam13384 379731009011 Winged helix-turn helix; Region: HTH_29; pfam13551 379731009012 Winged helix-turn helix; Region: HTH_33; pfam13592 379731009013 DDE superfamily endonuclease; Region: DDE_3; pfam13358 379731009014 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 379731009015 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 379731009016 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 379731009017 NADP binding site [chemical binding]; other site 379731009018 active site 379731009019 putative substrate binding site [chemical binding]; other site 379731009020 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 379731009021 PAS domain S-box; Region: sensory_box; TIGR00229 379731009022 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 379731009023 putative active site [active] 379731009024 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 379731009025 dimer interface [polypeptide binding]; other site 379731009026 phosphorylation site [posttranslational modification] 379731009027 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 379731009028 ATP binding site [chemical binding]; other site 379731009029 Mg2+ binding site [ion binding]; other site 379731009030 G-X-G motif; other site 379731009031 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731009032 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731009033 active site 379731009034 phosphorylation site [posttranslational modification] 379731009035 intermolecular recognition site; other site 379731009036 dimerization interface [polypeptide binding]; other site 379731009037 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 379731009038 C factor cell-cell signaling protein; Provisional; Region: PRK09009 379731009039 NADP binding site [chemical binding]; other site 379731009040 homodimer interface [polypeptide binding]; other site 379731009041 active site 379731009042 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 379731009043 ABC1 family; Region: ABC1; cl17513 379731009044 circadian clock protein KaiC; Reviewed; Region: PRK09302 379731009045 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 379731009046 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 379731009047 Walker A motif; other site 379731009048 Walker A motif; other site 379731009049 ATP binding site [chemical binding]; other site 379731009050 Walker B motif; other site 379731009051 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 379731009052 Walker A motif; other site 379731009053 ATP binding site [chemical binding]; other site 379731009054 Walker B motif; other site 379731009055 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731009056 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 379731009057 dimer interface [polypeptide binding]; other site 379731009058 phosphorylation site [posttranslational modification] 379731009059 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 379731009060 ATP binding site [chemical binding]; other site 379731009061 Mg2+ binding site [ion binding]; other site 379731009062 G-X-G motif; other site 379731009063 Response regulator receiver domain; Region: Response_reg; pfam00072 379731009064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731009065 active site 379731009066 phosphorylation site [posttranslational modification] 379731009067 intermolecular recognition site; other site 379731009068 dimerization interface [polypeptide binding]; other site 379731009069 KTSC domain; Region: KTSC; pfam13619 379731009070 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 379731009071 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 379731009072 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731009073 Walker A/P-loop; other site 379731009074 ATP binding site [chemical binding]; other site 379731009075 Q-loop/lid; other site 379731009076 ABC transporter signature motif; other site 379731009077 Walker B; other site 379731009078 D-loop; other site 379731009079 H-loop/switch region; other site 379731009080 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 379731009081 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 379731009082 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 379731009083 UDP-galactopyranose mutase; Region: GLF; pfam03275 379731009084 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 379731009085 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 379731009086 putative homodimer interface [polypeptide binding]; other site 379731009087 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 379731009088 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 379731009089 NAD binding site [chemical binding]; other site 379731009090 homodimer interface [polypeptide binding]; other site 379731009091 active site 379731009092 substrate binding site [chemical binding]; other site 379731009093 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 379731009094 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 379731009095 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731009096 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 379731009097 dimerization interface [polypeptide binding]; other site 379731009098 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 379731009099 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 379731009100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731009101 catalytic residue [active] 379731009102 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 379731009103 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 379731009104 substrate binding site [chemical binding]; other site 379731009105 active site 379731009106 catalytic residues [active] 379731009107 heterodimer interface [polypeptide binding]; other site 379731009108 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 379731009109 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 379731009110 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 379731009111 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 379731009112 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 379731009113 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 379731009114 NMT1/THI5 like; Region: NMT1; pfam09084 379731009115 substrate binding pocket [chemical binding]; other site 379731009116 membrane-bound complex binding site; other site 379731009117 hinge residues; other site 379731009118 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 379731009119 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 379731009120 Walker A/P-loop; other site 379731009121 ATP binding site [chemical binding]; other site 379731009122 Q-loop/lid; other site 379731009123 ABC transporter signature motif; other site 379731009124 Walker B; other site 379731009125 D-loop; other site 379731009126 H-loop/switch region; other site 379731009127 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 379731009128 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731009129 putative PBP binding loops; other site 379731009130 dimer interface [polypeptide binding]; other site 379731009131 ABC-ATPase subunit interface; other site 379731009132 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 379731009133 nucleoside/Zn binding site; other site 379731009134 dimer interface [polypeptide binding]; other site 379731009135 catalytic motif [active] 379731009136 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 379731009137 classical (c) SDRs; Region: SDR_c; cd05233 379731009138 NAD(P) binding site [chemical binding]; other site 379731009139 active site 379731009140 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 379731009141 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 379731009142 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 379731009143 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731009144 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 379731009145 Q-loop/lid; other site 379731009146 ABC transporter signature motif; other site 379731009147 Walker B; other site 379731009148 D-loop; other site 379731009149 H-loop/switch region; other site 379731009150 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 379731009151 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 379731009152 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 379731009153 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 379731009154 TM-ABC transporter signature motif; other site 379731009155 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 379731009156 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 379731009157 TM-ABC transporter signature motif; other site 379731009158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 379731009159 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 379731009160 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 379731009161 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 379731009162 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 379731009163 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 379731009164 active site 379731009165 putative metal-binding site [ion binding]; other site 379731009166 putative interdomain interaction site [polypeptide binding]; other site 379731009167 putative nucleotide binding site [chemical binding]; other site 379731009168 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 379731009169 domain I; other site 379731009170 DNA binding groove [nucleotide binding] 379731009171 phosphate binding site [ion binding]; other site 379731009172 domain II; other site 379731009173 domain III; other site 379731009174 nucleotide binding site [chemical binding]; other site 379731009175 catalytic site [active] 379731009176 domain IV; other site 379731009177 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 379731009178 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 379731009179 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 379731009180 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 379731009181 transmembrane helices; other site 379731009182 TrkA-C domain; Region: TrkA_C; pfam02080 379731009183 TrkA-C domain; Region: TrkA_C; pfam02080 379731009184 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 379731009185 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 379731009186 Nitrate and nitrite sensing; Region: NIT; pfam08376 379731009187 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 379731009188 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 379731009189 dimerization interface [polypeptide binding]; other site 379731009190 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731009191 dimer interface [polypeptide binding]; other site 379731009192 putative CheW interface [polypeptide binding]; other site 379731009193 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 379731009194 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731009195 putative substrate translocation pore; other site 379731009196 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 379731009197 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 379731009198 nucleophilic elbow; other site 379731009199 catalytic triad; other site 379731009200 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 379731009201 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 379731009202 Chromate transporter; Region: Chromate_transp; pfam02417 379731009203 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 379731009204 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 379731009205 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 379731009206 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 379731009207 dimerization interface [polypeptide binding]; other site 379731009208 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731009209 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731009210 dimer interface [polypeptide binding]; other site 379731009211 putative CheW interface [polypeptide binding]; other site 379731009212 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 379731009213 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 379731009214 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 379731009215 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731009216 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731009217 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 379731009218 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 379731009219 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 379731009220 dimerization interface [polypeptide binding]; other site 379731009221 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731009222 dimer interface [polypeptide binding]; other site 379731009223 putative CheW interface [polypeptide binding]; other site 379731009224 Protein of unknown function (DUF445); Region: DUF445; pfam04286 379731009225 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731009226 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 379731009227 Walker A/P-loop; other site 379731009228 ATP binding site [chemical binding]; other site 379731009229 Q-loop/lid; other site 379731009230 ABC transporter signature motif; other site 379731009231 Walker B; other site 379731009232 D-loop; other site 379731009233 H-loop/switch region; other site 379731009234 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 379731009235 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731009236 dimer interface [polypeptide binding]; other site 379731009237 conserved gate region; other site 379731009238 putative PBP binding loops; other site 379731009239 ABC-ATPase subunit interface; other site 379731009240 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 379731009241 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 379731009242 membrane-bound complex binding site; other site 379731009243 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 379731009244 HIT family signature motif; other site 379731009245 catalytic residue [active] 379731009246 glutamate carboxypeptidase; Reviewed; Region: PRK06133 379731009247 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 379731009248 metal binding site [ion binding]; metal-binding site 379731009249 dimer interface [polypeptide binding]; other site 379731009250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 379731009251 MOSC domain; Region: MOSC; pfam03473 379731009252 Predicted periplasmic protein [Function unknown]; Region: COG3904 379731009253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 379731009254 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 379731009255 dimer interface [polypeptide binding]; other site 379731009256 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 379731009257 Predicted membrane protein [Function unknown]; Region: COG3503 379731009258 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 379731009259 Citrate transporter; Region: CitMHS; pfam03600 379731009260 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 379731009261 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 379731009262 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 379731009263 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 379731009264 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 379731009265 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 379731009266 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 379731009267 hypothetical protein; Provisional; Region: PRK11171 379731009268 Cupin domain; Region: Cupin_2; pfam07883 379731009269 Cupin domain; Region: Cupin_2; pfam07883 379731009270 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 379731009271 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 379731009272 S-adenosylmethionine binding site [chemical binding]; other site 379731009273 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 379731009274 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 379731009275 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 379731009276 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 379731009277 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 379731009278 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 379731009279 Protein phosphatase 2C; Region: PP2C; pfam00481 379731009280 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 379731009281 active site 379731009282 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 379731009283 Catalytic domain of Protein Kinases; Region: PKc; cd00180 379731009284 active site 379731009285 ATP binding site [chemical binding]; other site 379731009286 substrate binding site [chemical binding]; other site 379731009287 activation loop (A-loop); other site 379731009288 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 379731009289 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 379731009290 phosphopeptide binding site; other site 379731009291 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 379731009292 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 379731009293 phosphopeptide binding site; other site 379731009294 Predicted permeases [General function prediction only]; Region: RarD; COG2962 379731009295 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 379731009296 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 379731009297 ATP binding site [chemical binding]; other site 379731009298 putative Mg++ binding site [ion binding]; other site 379731009299 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 379731009300 nucleotide binding region [chemical binding]; other site 379731009301 ATP-binding site [chemical binding]; other site 379731009302 Helicase associated domain (HA2); Region: HA2; pfam04408 379731009303 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 379731009304 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 379731009305 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 379731009306 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 379731009307 PA/protease or protease-like domain interface [polypeptide binding]; other site 379731009308 M28 Zn-peptidase Streptomyces griseus Aminopeptidase and similar proteins; Region: M28_SGAP_like; cd03876 379731009309 Peptidase family M28; Region: Peptidase_M28; pfam04389 379731009310 active site 379731009311 metal binding site [ion binding]; metal-binding site 379731009312 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 379731009313 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 379731009314 dimerization interface [polypeptide binding]; other site 379731009315 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731009316 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731009317 dimer interface [polypeptide binding]; other site 379731009318 putative CheW interface [polypeptide binding]; other site 379731009319 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 379731009320 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 379731009321 dimerization interface [polypeptide binding]; other site 379731009322 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731009323 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731009324 dimer interface [polypeptide binding]; other site 379731009325 putative CheW interface [polypeptide binding]; other site 379731009326 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 379731009327 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 379731009328 acyl-activating enzyme (AAE) consensus motif; other site 379731009329 putative AMP binding site [chemical binding]; other site 379731009330 putative active site [active] 379731009331 putative CoA binding site [chemical binding]; other site 379731009332 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 379731009333 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 379731009334 acyl-activating enzyme (AAE) consensus motif; other site 379731009335 putative AMP binding site [chemical binding]; other site 379731009336 putative active site [active] 379731009337 putative CoA binding site [chemical binding]; other site 379731009338 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 379731009339 dimer interaction site [polypeptide binding]; other site 379731009340 substrate-binding tunnel; other site 379731009341 active site 379731009342 catalytic site [active] 379731009343 substrate binding site [chemical binding]; other site 379731009344 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 379731009345 carbohydrate binding site [chemical binding]; other site 379731009346 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 379731009347 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 379731009348 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 379731009349 Ca binding site [ion binding]; other site 379731009350 active site 379731009351 catalytic site [active] 379731009352 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 379731009353 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 379731009354 ATP-dependent helicase HepA; Validated; Region: PRK04914 379731009355 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 379731009356 ATP binding site [chemical binding]; other site 379731009357 putative Mg++ binding site [ion binding]; other site 379731009358 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 379731009359 nucleotide binding region [chemical binding]; other site 379731009360 ATP-binding site [chemical binding]; other site 379731009361 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 379731009362 putative chaperone; Provisional; Region: PRK11678 379731009363 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 379731009364 nucleotide binding site [chemical binding]; other site 379731009365 putative NEF/HSP70 interaction site [polypeptide binding]; other site 379731009366 SBD interface [polypeptide binding]; other site 379731009367 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731009368 putative substrate translocation pore; other site 379731009369 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731009370 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 379731009371 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 379731009372 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 379731009373 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 379731009374 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 379731009375 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 379731009376 substrate binding pocket [chemical binding]; other site 379731009377 membrane-bound complex binding site; other site 379731009378 hinge residues; other site 379731009379 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731009380 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 379731009381 Walker A/P-loop; other site 379731009382 ATP binding site [chemical binding]; other site 379731009383 Q-loop/lid; other site 379731009384 ABC transporter signature motif; other site 379731009385 Walker B; other site 379731009386 D-loop; other site 379731009387 H-loop/switch region; other site 379731009388 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 379731009389 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731009390 dimer interface [polypeptide binding]; other site 379731009391 conserved gate region; other site 379731009392 putative PBP binding loops; other site 379731009393 ABC-ATPase subunit interface; other site 379731009394 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 379731009395 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 379731009396 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 379731009397 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 379731009398 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 379731009399 dimerization interface [polypeptide binding]; other site 379731009400 ligand binding site [chemical binding]; other site 379731009401 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 379731009402 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 379731009403 TM-ABC transporter signature motif; other site 379731009404 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 379731009405 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 379731009406 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 379731009407 TM-ABC transporter signature motif; other site 379731009408 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 379731009409 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 379731009410 Walker A/P-loop; other site 379731009411 ATP binding site [chemical binding]; other site 379731009412 Q-loop/lid; other site 379731009413 ABC transporter signature motif; other site 379731009414 Walker B; other site 379731009415 D-loop; other site 379731009416 H-loop/switch region; other site 379731009417 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 379731009418 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 379731009419 Walker A/P-loop; other site 379731009420 ATP binding site [chemical binding]; other site 379731009421 Q-loop/lid; other site 379731009422 ABC transporter signature motif; other site 379731009423 Walker B; other site 379731009424 D-loop; other site 379731009425 H-loop/switch region; other site 379731009426 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 379731009427 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 379731009428 META domain; Region: META; pfam03724 379731009429 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 379731009430 active site 379731009431 DNA polymerase IV; Validated; Region: PRK02406 379731009432 DNA binding site [nucleotide binding] 379731009433 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 379731009434 active site 379731009435 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 379731009436 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 379731009437 HIGH motif; other site 379731009438 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 379731009439 active site 379731009440 KMSKS motif; other site 379731009441 excinuclease ABC subunit B; Provisional; Region: PRK05298 379731009442 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 379731009443 ATP binding site [chemical binding]; other site 379731009444 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 379731009445 nucleotide binding region [chemical binding]; other site 379731009446 ATP-binding site [chemical binding]; other site 379731009447 Ultra-violet resistance protein B; Region: UvrB; pfam12344 379731009448 UvrB/uvrC motif; Region: UVR; pfam02151 379731009449 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 379731009450 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 379731009451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731009452 homodimer interface [polypeptide binding]; other site 379731009453 catalytic residue [active] 379731009454 VanZ like family; Region: VanZ; cl01971 379731009455 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 379731009456 Transposase; Region: DDE_Tnp_ISL3; pfam01610 379731009457 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 379731009458 putative GSH binding site [chemical binding]; other site 379731009459 catalytic residues [active] 379731009460 ornithine carbamoyltransferase; Provisional; Region: PRK00779 379731009461 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 379731009462 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 379731009463 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 379731009464 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 379731009465 Walker A/P-loop; other site 379731009466 ATP binding site [chemical binding]; other site 379731009467 Q-loop/lid; other site 379731009468 ABC transporter signature motif; other site 379731009469 Walker B; other site 379731009470 D-loop; other site 379731009471 H-loop/switch region; other site 379731009472 TOBE domain; Region: TOBE_2; pfam08402 379731009473 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 379731009474 nucleoside/Zn binding site; other site 379731009475 dimer interface [polypeptide binding]; other site 379731009476 catalytic motif [active] 379731009477 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 379731009478 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 379731009479 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 379731009480 GMP synthase; Reviewed; Region: guaA; PRK00074 379731009481 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 379731009482 AMP/PPi binding site [chemical binding]; other site 379731009483 candidate oxyanion hole; other site 379731009484 catalytic triad [active] 379731009485 potential glutamine specificity residues [chemical binding]; other site 379731009486 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 379731009487 ATP Binding subdomain [chemical binding]; other site 379731009488 Ligand Binding sites [chemical binding]; other site 379731009489 Dimerization subdomain; other site 379731009490 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 379731009491 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 379731009492 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 379731009493 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 379731009494 active site 379731009495 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 379731009496 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 379731009497 generic binding surface II; other site 379731009498 generic binding surface I; other site 379731009499 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 379731009500 Peptidase family M23; Region: Peptidase_M23; pfam01551 379731009501 Isochorismatase family; Region: Isochorismatase; pfam00857 379731009502 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 379731009503 catalytic triad [active] 379731009504 conserved cis-peptide bond; other site 379731009505 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 379731009506 Mechanosensitive ion channel; Region: MS_channel; pfam00924 379731009507 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 379731009508 N-terminal plug; other site 379731009509 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 379731009510 ligand-binding site [chemical binding]; other site 379731009511 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 379731009512 2-isopropylmalate synthase; Validated; Region: PRK03739 379731009513 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 379731009514 active site 379731009515 catalytic residues [active] 379731009516 metal binding site [ion binding]; metal-binding site 379731009517 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 379731009518 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 379731009519 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 379731009520 putative NAD(P) binding site [chemical binding]; other site 379731009521 putative substrate binding site [chemical binding]; other site 379731009522 catalytic Zn binding site [ion binding]; other site 379731009523 structural Zn binding site [ion binding]; other site 379731009524 dimer interface [polypeptide binding]; other site 379731009525 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 379731009526 EamA-like transporter family; Region: EamA; pfam00892 379731009527 DNA-specific endonuclease I; Provisional; Region: PRK15137 379731009528 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 379731009529 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 379731009530 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 379731009531 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 379731009532 S-adenosylmethionine binding site [chemical binding]; other site 379731009533 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 379731009534 C-N hydrolase family amidase; Provisional; Region: PRK10438 379731009535 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 379731009536 putative active site [active] 379731009537 catalytic triad [active] 379731009538 dimer interface [polypeptide binding]; other site 379731009539 multimer interface [polypeptide binding]; other site 379731009540 methionine aminotransferase; Validated; Region: PRK09082 379731009541 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 379731009542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731009543 homodimer interface [polypeptide binding]; other site 379731009544 catalytic residue [active] 379731009545 serine acetyltransferase; Provisional; Region: cysE; PRK11132 379731009546 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 379731009547 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 379731009548 trimer interface [polypeptide binding]; other site 379731009549 active site 379731009550 substrate binding site [chemical binding]; other site 379731009551 CoA binding site [chemical binding]; other site 379731009552 GTP-binding protein Der; Reviewed; Region: PRK00093 379731009553 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 379731009554 G1 box; other site 379731009555 GTP/Mg2+ binding site [chemical binding]; other site 379731009556 Switch I region; other site 379731009557 G2 box; other site 379731009558 Switch II region; other site 379731009559 G3 box; other site 379731009560 G4 box; other site 379731009561 G5 box; other site 379731009562 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 379731009563 G1 box; other site 379731009564 GTP/Mg2+ binding site [chemical binding]; other site 379731009565 Switch I region; other site 379731009566 G2 box; other site 379731009567 G3 box; other site 379731009568 Switch II region; other site 379731009569 G4 box; other site 379731009570 G5 box; other site 379731009571 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 379731009572 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 379731009573 Trp docking motif [polypeptide binding]; other site 379731009574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 379731009575 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 379731009576 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 379731009577 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 379731009578 dimer interface [polypeptide binding]; other site 379731009579 motif 1; other site 379731009580 active site 379731009581 motif 2; other site 379731009582 motif 3; other site 379731009583 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 379731009584 anticodon binding site; other site 379731009585 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 379731009586 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 379731009587 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 379731009588 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 379731009589 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 379731009590 non-specific DNA binding site [nucleotide binding]; other site 379731009591 salt bridge; other site 379731009592 sequence-specific DNA binding site [nucleotide binding]; other site 379731009593 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 379731009594 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 379731009595 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 379731009596 binding surface 379731009597 TPR motif; other site 379731009598 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 379731009599 binding surface 379731009600 TPR motif; other site 379731009601 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 379731009602 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 379731009603 FeS/SAM binding site; other site 379731009604 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 379731009605 active site 379731009606 multimer interface [polypeptide binding]; other site 379731009607 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 379731009608 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 379731009609 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 379731009610 catalytic loop [active] 379731009611 iron binding site [ion binding]; other site 379731009612 chaperone protein HscA; Provisional; Region: hscA; PRK05183 379731009613 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 379731009614 nucleotide binding site [chemical binding]; other site 379731009615 putative NEF/HSP70 interaction site [polypeptide binding]; other site 379731009616 SBD interface [polypeptide binding]; other site 379731009617 co-chaperone HscB; Provisional; Region: hscB; PRK00294 379731009618 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 379731009619 HSP70 interaction site [polypeptide binding]; other site 379731009620 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 379731009621 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 379731009622 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 379731009623 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 379731009624 trimerization site [polypeptide binding]; other site 379731009625 active site 379731009626 cysteine desulfurase; Provisional; Region: PRK14012 379731009627 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 379731009628 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 379731009629 catalytic residue [active] 379731009630 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 379731009631 Rrf2 family protein; Region: rrf2_super; TIGR00738 379731009632 serine O-acetyltransferase; Region: cysE; TIGR01172 379731009633 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 379731009634 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 379731009635 trimer interface [polypeptide binding]; other site 379731009636 active site 379731009637 substrate binding site [chemical binding]; other site 379731009638 CoA binding site [chemical binding]; other site 379731009639 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 379731009640 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 379731009641 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 379731009642 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 379731009643 active site 379731009644 dimerization interface [polypeptide binding]; other site 379731009645 hypothetical protein; Provisional; Region: PRK11280 379731009646 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 379731009647 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 379731009648 Protein export membrane protein; Region: SecD_SecF; pfam02355 379731009649 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 379731009650 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 379731009651 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 379731009652 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 379731009653 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 379731009654 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 379731009655 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 379731009656 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 379731009657 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 379731009658 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 379731009659 DNA-binding site [nucleotide binding]; DNA binding site 379731009660 RNA-binding motif; other site 379731009661 RDD family; Region: RDD; pfam06271 379731009662 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 379731009663 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 379731009664 Predicted permeases [General function prediction only]; Region: COG0795 379731009665 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 379731009666 multifunctional aminopeptidase A; Provisional; Region: PRK00913 379731009667 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 379731009668 interface (dimer of trimers) [polypeptide binding]; other site 379731009669 Substrate-binding/catalytic site; other site 379731009670 Zn-binding sites [ion binding]; other site 379731009671 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 379731009672 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 379731009673 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 379731009674 HIGH motif; other site 379731009675 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 379731009676 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 379731009677 active site 379731009678 KMSKS motif; other site 379731009679 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 379731009680 tRNA binding surface [nucleotide binding]; other site 379731009681 anticodon binding site; other site 379731009682 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 379731009683 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 379731009684 NHAD transporter family protein; Provisional; Region: PLN00137 379731009685 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 379731009686 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 379731009687 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 379731009688 TrkA-C domain; Region: TrkA_C; pfam02080 379731009689 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 379731009690 TrkA-C domain; Region: TrkA_C; pfam02080 379731009691 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 379731009692 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731009693 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731009694 putative substrate translocation pore; other site 379731009695 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 379731009696 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 379731009697 S-adenosylmethionine binding site [chemical binding]; other site 379731009698 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731009699 nucleoid-associated protein NdpA; Validated; Region: PRK00378 379731009700 Nucleoid-associated protein [General function prediction only]; Region: COG3081 379731009701 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 379731009702 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 379731009703 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 379731009704 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 379731009705 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 379731009706 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 379731009707 N-terminal domain interface [polypeptide binding]; other site 379731009708 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 379731009709 GIY-YIG motif/motif A; other site 379731009710 putative active site [active] 379731009711 putative metal binding site [ion binding]; other site 379731009712 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 379731009713 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 379731009714 substrate binding pocket [chemical binding]; other site 379731009715 membrane-bound complex binding site; other site 379731009716 hinge residues; other site 379731009717 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 379731009718 N-acetyl-D-glucosamine binding site [chemical binding]; other site 379731009719 catalytic residue [active] 379731009720 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 379731009721 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 379731009722 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 379731009723 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 379731009724 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 379731009725 motif II; other site 379731009726 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 379731009727 C factor cell-cell signaling protein; Provisional; Region: PRK09009 379731009728 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 379731009729 NADP binding site [chemical binding]; other site 379731009730 homodimer interface [polypeptide binding]; other site 379731009731 active site 379731009732 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 379731009733 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 379731009734 active site 379731009735 putative substrate binding pocket [chemical binding]; other site 379731009736 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 379731009737 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 379731009738 putative ligand binding site [chemical binding]; other site 379731009739 oxidase reductase; Provisional; Region: PTZ00273 379731009740 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 379731009741 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 379731009742 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 379731009743 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 379731009744 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 379731009745 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 379731009746 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 379731009747 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 379731009748 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 379731009749 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 379731009750 XdhC Rossmann domain; Region: XdhC_C; pfam13478 379731009751 guanine deaminase; Provisional; Region: PRK09228 379731009752 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 379731009753 active site 379731009754 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 379731009755 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 379731009756 ABC-ATPase subunit interface; other site 379731009757 dimer interface [polypeptide binding]; other site 379731009758 putative PBP binding regions; other site 379731009759 Transcriptional regulators [Transcription]; Region: GntR; COG1802 379731009760 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 379731009761 DNA-binding site [nucleotide binding]; DNA binding site 379731009762 FCD domain; Region: FCD; pfam07729 379731009763 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 379731009764 Sulfate transporter family; Region: Sulfate_transp; pfam00916 379731009765 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 379731009766 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 379731009767 active site 379731009768 homotetramer interface [polypeptide binding]; other site 379731009769 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 379731009770 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 379731009771 active site 379731009772 catalytic site [active] 379731009773 tetramer interface [polypeptide binding]; other site 379731009774 OHCU decarboxylase; Region: UHCUDC; TIGR03164 379731009775 allantoicase; Provisional; Region: PRK13257 379731009776 Allantoicase repeat; Region: Allantoicase; pfam03561 379731009777 Allantoicase repeat; Region: Allantoicase; pfam03561 379731009778 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 379731009779 ureidoglycolate hydrolase; Provisional; Region: PRK03606 379731009780 Predicted membrane protein [Function unknown]; Region: COG3748 379731009781 Protein of unknown function (DUF989); Region: DUF989; pfam06181 379731009782 Cytochrome c; Region: Cytochrom_C; pfam00034 379731009783 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 379731009784 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 379731009785 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 379731009786 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 379731009787 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 379731009788 motif II; other site 379731009789 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 379731009790 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 379731009791 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 379731009792 dimerization interface [polypeptide binding]; other site 379731009793 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731009794 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731009795 dimer interface [polypeptide binding]; other site 379731009796 putative CheW interface [polypeptide binding]; other site 379731009797 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 379731009798 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731009799 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 379731009800 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731009801 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731009802 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 379731009803 HlyD family secretion protein; Region: HlyD_3; pfam13437 379731009804 Homeodomain-like domain; Region: HTH_23; pfam13384 379731009805 Winged helix-turn helix; Region: HTH_29; pfam13551 379731009806 Winged helix-turn helix; Region: HTH_33; pfam13592 379731009807 DDE superfamily endonuclease; Region: DDE_3; pfam13358 379731009808 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 379731009809 Outer membrane efflux protein; Region: OEP; pfam02321 379731009810 Outer membrane efflux protein; Region: OEP; pfam02321 379731009811 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 379731009812 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 379731009813 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 379731009814 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 379731009815 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 379731009816 active site 379731009817 putative catalytic site [active] 379731009818 metal binding site A [ion binding]; metal-binding site 379731009819 putative phosphate binding site [ion binding]; other site 379731009820 DNA binding site [nucleotide binding] 379731009821 putative AP binding site [nucleotide binding]; other site 379731009822 putative metal binding site B [ion binding]; other site 379731009823 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 379731009824 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 379731009825 dimer interface [polypeptide binding]; other site 379731009826 phosphorylation site [posttranslational modification] 379731009827 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 379731009828 ATP binding site [chemical binding]; other site 379731009829 G-X-G motif; other site 379731009830 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731009831 intermolecular recognition site; other site 379731009832 active site 379731009833 dimerization interface [polypeptide binding]; other site 379731009834 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 379731009835 DNA binding site [nucleotide binding] 379731009836 Domain of unknown function (DUF336); Region: DUF336; cl01249 379731009837 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 379731009838 active site 379731009839 homotetramer interface [polypeptide binding]; other site 379731009840 transcriptional activator TtdR; Provisional; Region: PRK09801 379731009841 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731009842 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 379731009843 putative effector binding pocket; other site 379731009844 dimerization interface [polypeptide binding]; other site 379731009845 glyoxylate carboligase; Provisional; Region: PRK11269 379731009846 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 379731009847 PYR/PP interface [polypeptide binding]; other site 379731009848 dimer interface [polypeptide binding]; other site 379731009849 TPP binding site [chemical binding]; other site 379731009850 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 379731009851 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 379731009852 TPP-binding site [chemical binding]; other site 379731009853 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 379731009854 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 379731009855 tartronate semialdehyde reductase; Provisional; Region: PRK15059 379731009856 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 379731009857 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 379731009858 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 379731009859 MOFRL family; Region: MOFRL; pfam05161 379731009860 pyruvate kinase; Provisional; Region: PRK06247 379731009861 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 379731009862 domain interfaces; other site 379731009863 active site 379731009864 Urea transporter; Region: UT; cl01829 379731009865 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 379731009866 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 379731009867 heme-binding site [chemical binding]; other site 379731009868 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 379731009869 FAD binding pocket [chemical binding]; other site 379731009870 FAD binding motif [chemical binding]; other site 379731009871 phosphate binding motif [ion binding]; other site 379731009872 beta-alpha-beta structure motif; other site 379731009873 NAD binding pocket [chemical binding]; other site 379731009874 Heme binding pocket [chemical binding]; other site 379731009875 General stress protein [General function prediction only]; Region: GsiB; COG3729 379731009876 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 379731009877 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 379731009878 active site 379731009879 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731009880 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731009881 metal binding site [ion binding]; metal-binding site 379731009882 active site 379731009883 I-site; other site 379731009884 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 379731009885 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 379731009886 active site 379731009887 catalytic triad [active] 379731009888 oxyanion hole [active] 379731009889 Autotransporter beta-domain; Region: Autotransporter; smart00869 379731009890 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 379731009891 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 379731009892 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 379731009893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731009894 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 379731009895 dimerization interface [polypeptide binding]; other site 379731009896 Lysine efflux permease [General function prediction only]; Region: COG1279 379731009897 superoxide dismutase; Provisional; Region: PRK10543 379731009898 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 379731009899 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 379731009900 biofilm formation regulator HmsP; Provisional; Region: PRK11829 379731009901 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731009902 metal binding site [ion binding]; metal-binding site 379731009903 active site 379731009904 I-site; other site 379731009905 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 379731009906 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 379731009907 S-adenosylmethionine binding site [chemical binding]; other site 379731009908 E3 Ubiquitin ligase; Region: GIDE; pfam12483 379731009909 LemA family; Region: LemA; cl00742 379731009910 Imelysin; Region: Peptidase_M75; cl09159 379731009911 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 379731009912 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 379731009913 Imelysin; Region: Peptidase_M75; cl09159 379731009914 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 379731009915 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 379731009916 dimerization interface [polypeptide binding]; other site 379731009917 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731009918 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731009919 dimer interface [polypeptide binding]; other site 379731009920 putative CheW interface [polypeptide binding]; other site 379731009921 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 379731009922 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 379731009923 HlyD family secretion protein; Region: HlyD_3; pfam13437 379731009924 multidrug efflux protein; Reviewed; Region: PRK09579 379731009925 Protein export membrane protein; Region: SecD_SecF; cl14618 379731009926 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 379731009927 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 379731009928 ring oligomerisation interface [polypeptide binding]; other site 379731009929 ATP/Mg binding site [chemical binding]; other site 379731009930 stacking interactions; other site 379731009931 hinge regions; other site 379731009932 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 379731009933 oligomerisation interface [polypeptide binding]; other site 379731009934 mobile loop; other site 379731009935 roof hairpin; other site 379731009936 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 379731009937 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 379731009938 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 379731009939 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 379731009940 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 379731009941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731009942 NAD(P) binding site [chemical binding]; other site 379731009943 active site 379731009944 Protein of unknown function, DUF481; Region: DUF481; pfam04338 379731009945 muropeptide transporter; Validated; Region: ampG; cl17669 379731009946 muropeptide transporter; Validated; Region: ampG; cl17669 379731009947 mechanosensitive channel MscS; Provisional; Region: PRK10334 379731009948 Mechanosensitive ion channel; Region: MS_channel; pfam00924 379731009949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 379731009950 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 379731009951 Response regulator receiver domain; Region: Response_reg; pfam00072 379731009952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731009953 active site 379731009954 phosphorylation site [posttranslational modification] 379731009955 intermolecular recognition site; other site 379731009956 dimerization interface [polypeptide binding]; other site 379731009957 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731009958 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731009959 metal binding site [ion binding]; metal-binding site 379731009960 active site 379731009961 I-site; other site 379731009962 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 379731009963 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 379731009964 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 379731009965 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 379731009966 dimerization interface [polypeptide binding]; other site 379731009967 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 379731009968 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 379731009969 putative active site [active] 379731009970 heme pocket [chemical binding]; other site 379731009971 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 379731009972 dimer interface [polypeptide binding]; other site 379731009973 phosphorylation site [posttranslational modification] 379731009974 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 379731009975 ATP binding site [chemical binding]; other site 379731009976 Mg2+ binding site [ion binding]; other site 379731009977 G-X-G motif; other site 379731009978 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 379731009979 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 379731009980 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 379731009981 ATP-grasp domain; Region: ATP-grasp_4; cl17255 379731009982 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 379731009983 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 379731009984 catalytic residue [active] 379731009985 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 379731009986 catalytic residues [active] 379731009987 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 379731009988 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 379731009989 peroxiredoxin; Region: AhpC; TIGR03137 379731009990 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 379731009991 dimer interface [polypeptide binding]; other site 379731009992 decamer (pentamer of dimers) interface [polypeptide binding]; other site 379731009993 catalytic triad [active] 379731009994 peroxidatic and resolving cysteines [active] 379731009995 hypothetical protein; Provisional; Region: PRK08999 379731009996 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 379731009997 active site 379731009998 8-oxo-dGMP binding site [chemical binding]; other site 379731009999 nudix motif; other site 379731010000 metal binding site [ion binding]; metal-binding site 379731010001 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 379731010002 thiamine phosphate binding site [chemical binding]; other site 379731010003 active site 379731010004 pyrophosphate binding site [ion binding]; other site 379731010005 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 379731010006 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 379731010007 putative C-terminal domain interface [polypeptide binding]; other site 379731010008 putative GSH binding site (G-site) [chemical binding]; other site 379731010009 putative dimer interface [polypeptide binding]; other site 379731010010 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 379731010011 putative N-terminal domain interface [polypeptide binding]; other site 379731010012 putative dimer interface [polypeptide binding]; other site 379731010013 putative substrate binding pocket (H-site) [chemical binding]; other site 379731010014 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 379731010015 heterotetramer interface [polypeptide binding]; other site 379731010016 active site pocket [active] 379731010017 cleavage site 379731010018 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 379731010019 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 379731010020 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 379731010021 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 379731010022 nucleotide binding region [chemical binding]; other site 379731010023 ATP-binding site [chemical binding]; other site 379731010024 SEC-C motif; Region: SEC-C; pfam02810 379731010025 Protein of unknown function (DUF721); Region: DUF721; pfam05258 379731010026 YebG protein; Region: YebG; cl01217 379731010027 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 379731010028 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 379731010029 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 379731010030 DNA binding residues [nucleotide binding] 379731010031 dimerization interface [polypeptide binding]; other site 379731010032 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 379731010033 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 379731010034 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 379731010035 active site 379731010036 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 379731010037 active site 379731010038 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 379731010039 Flagellin N-methylase; Region: FliB; pfam03692 379731010040 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 379731010041 glutamate racemase; Provisional; Region: PRK00865 379731010042 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 379731010043 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 379731010044 ATP binding site [chemical binding]; other site 379731010045 substrate interface [chemical binding]; other site 379731010046 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 379731010047 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 379731010048 peptide chain release factor 1; Validated; Region: prfA; PRK00591 379731010049 This domain is found in peptide chain release factors; Region: PCRF; smart00937 379731010050 RF-1 domain; Region: RF-1; pfam00472 379731010051 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 379731010052 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 379731010053 tRNA; other site 379731010054 putative tRNA binding site [nucleotide binding]; other site 379731010055 putative NADP binding site [chemical binding]; other site 379731010056 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 379731010057 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 379731010058 TPR motif; other site 379731010059 binding surface 379731010060 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 379731010061 binding surface 379731010062 TPR motif; other site 379731010063 TPR repeat; Region: TPR_11; pfam13414 379731010064 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 379731010065 binding surface 379731010066 TPR motif; other site 379731010067 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 379731010068 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 379731010069 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 379731010070 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 379731010071 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 379731010072 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 379731010073 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 379731010074 active site 379731010075 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 379731010076 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 379731010077 5S rRNA interface [nucleotide binding]; other site 379731010078 CTC domain interface [polypeptide binding]; other site 379731010079 L16 interface [polypeptide binding]; other site 379731010080 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 379731010081 putative active site [active] 379731010082 GTP-binding protein YchF; Reviewed; Region: PRK09601 379731010083 YchF GTPase; Region: YchF; cd01900 379731010084 G1 box; other site 379731010085 GTP/Mg2+ binding site [chemical binding]; other site 379731010086 Switch I region; other site 379731010087 G2 box; other site 379731010088 Switch II region; other site 379731010089 G3 box; other site 379731010090 G4 box; other site 379731010091 G5 box; other site 379731010092 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 379731010093 integrase; Provisional; Region: PRK09692 379731010094 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 379731010095 active site 379731010096 Int/Topo IB signature motif; other site 379731010097 Fic family protein [Function unknown]; Region: COG3177 379731010098 Fic/DOC family; Region: Fic; pfam02661 379731010099 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 379731010100 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 379731010101 PLD-like domain; Region: PLDc_2; pfam13091 379731010102 putative homodimer interface [polypeptide binding]; other site 379731010103 putative active site [active] 379731010104 catalytic site [active] 379731010105 DEAD-like helicases superfamily; Region: DEXDc; smart00487 379731010106 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 379731010107 ATP binding site [chemical binding]; other site 379731010108 putative Mg++ binding site [ion binding]; other site 379731010109 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 379731010110 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 379731010111 nucleotide binding region [chemical binding]; other site 379731010112 ATP-binding site [chemical binding]; other site 379731010113 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 379731010114 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 379731010115 SIR2-like domain; Region: SIR2_2; pfam13289 379731010116 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 379731010117 5' RNA guide strand anchoring site; other site 379731010118 active site 379731010119 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 379731010120 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 379731010121 active site 379731010122 catalytic residues [active] 379731010123 Int/Topo IB signature motif; other site 379731010124 DNA binding site [nucleotide binding] 379731010125 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 379731010126 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731010127 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 379731010128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731010129 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 379731010130 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 379731010131 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 379731010132 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 379731010133 TM-ABC transporter signature motif; other site 379731010134 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 379731010135 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 379731010136 TM-ABC transporter signature motif; other site 379731010137 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 379731010138 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 379731010139 putative ligand binding site [chemical binding]; other site 379731010140 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 379731010141 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 379731010142 Walker A/P-loop; other site 379731010143 ATP binding site [chemical binding]; other site 379731010144 Q-loop/lid; other site 379731010145 ABC transporter signature motif; other site 379731010146 Walker B; other site 379731010147 D-loop; other site 379731010148 H-loop/switch region; other site 379731010149 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 379731010150 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 379731010151 Walker A/P-loop; other site 379731010152 ATP binding site [chemical binding]; other site 379731010153 Q-loop/lid; other site 379731010154 ABC transporter signature motif; other site 379731010155 Walker B; other site 379731010156 D-loop; other site 379731010157 H-loop/switch region; other site 379731010158 outer membrane porin, OprD family; Region: OprD; pfam03573 379731010159 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 379731010160 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 379731010161 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 379731010162 AMP-binding domain protein; Validated; Region: PRK08315 379731010163 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 379731010164 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 379731010165 acyl-activating enzyme (AAE) consensus motif; other site 379731010166 putative AMP binding site [chemical binding]; other site 379731010167 putative active site [active] 379731010168 putative CoA binding site [chemical binding]; other site 379731010169 UV-endonuclease UvdE; Region: UvdE; cl10036 379731010170 isovaleryl-CoA dehydrogenase; Region: PLN02519 379731010171 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 379731010172 substrate binding site [chemical binding]; other site 379731010173 FAD binding site [chemical binding]; other site 379731010174 catalytic base [active] 379731010175 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 379731010176 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 379731010177 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 379731010178 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 379731010179 substrate binding site [chemical binding]; other site 379731010180 oxyanion hole (OAH) forming residues; other site 379731010181 trimer interface [polypeptide binding]; other site 379731010182 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 379731010183 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 379731010184 ATP-grasp domain; Region: ATP-grasp_4; cl17255 379731010185 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 379731010186 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 379731010187 carboxyltransferase (CT) interaction site; other site 379731010188 biotinylation site [posttranslational modification]; other site 379731010189 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 379731010190 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 379731010191 active site 379731010192 catalytic residues [active] 379731010193 metal binding site [ion binding]; metal-binding site 379731010194 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 379731010195 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 379731010196 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 379731010197 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 379731010198 dimer interface [polypeptide binding]; other site 379731010199 active site 379731010200 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 379731010201 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 379731010202 DNA binding residues [nucleotide binding] 379731010203 putative dimer interface [polypeptide binding]; other site 379731010204 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 379731010205 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 379731010206 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 379731010207 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 379731010208 DctM-like transporters; Region: DctM; pfam06808 379731010209 PAS fold; Region: PAS_4; pfam08448 379731010210 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 379731010211 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 379731010212 Walker A motif; other site 379731010213 ATP binding site [chemical binding]; other site 379731010214 Walker B motif; other site 379731010215 arginine finger; other site 379731010216 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 379731010217 DoxX; Region: DoxX; pfam07681 379731010218 Tannase and feruloyl esterase; Region: Tannase; pfam07519 379731010219 outer membrane porin, OprD family; Region: OprD; pfam03573 379731010220 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 379731010221 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731010222 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 379731010223 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 379731010224 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 379731010225 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731010226 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 379731010227 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 379731010228 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731010229 AAA domain; Region: AAA_23; pfam13476 379731010230 AAA domain; Region: AAA_21; pfam13304 379731010231 Walker A/P-loop; other site 379731010232 ATP binding site [chemical binding]; other site 379731010233 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731010234 Walker B; other site 379731010235 D-loop; other site 379731010236 H-loop/switch region; other site 379731010237 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 379731010238 EamA-like transporter family; Region: EamA; pfam00892 379731010239 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 379731010240 active site clefts [active] 379731010241 zinc binding site [ion binding]; other site 379731010242 dimer interface [polypeptide binding]; other site 379731010243 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 379731010244 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 379731010245 active site 379731010246 homotetramer interface [polypeptide binding]; other site 379731010247 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 379731010248 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 379731010249 active site 379731010250 motif I; other site 379731010251 motif II; other site 379731010252 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 379731010253 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 379731010254 Coenzyme A binding pocket [chemical binding]; other site 379731010255 2-isopropylmalate synthase; Validated; Region: PRK00915 379731010256 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 379731010257 active site 379731010258 catalytic residues [active] 379731010259 metal binding site [ion binding]; metal-binding site 379731010260 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 379731010261 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 379731010262 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 379731010263 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 379731010264 dimer interface [polypeptide binding]; other site 379731010265 active site 379731010266 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 379731010267 catalytic residues [active] 379731010268 substrate binding site [chemical binding]; other site 379731010269 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 379731010270 mce related protein; Region: MCE; pfam02470 379731010271 mce related protein; Region: MCE; pfam02470 379731010272 mce related protein; Region: MCE; pfam02470 379731010273 mce related protein; Region: MCE; pfam02470 379731010274 mce related protein; Region: MCE; pfam02470 379731010275 mce related protein; Region: MCE; pfam02470 379731010276 Paraquat-inducible protein A; Region: PqiA; pfam04403 379731010277 Paraquat-inducible protein A; Region: PqiA; pfam04403 379731010278 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 379731010279 TMAO/DMSO reductase; Reviewed; Region: PRK05363 379731010280 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 379731010281 Moco binding site; other site 379731010282 metal coordination site [ion binding]; other site 379731010283 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 379731010284 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 379731010285 ketol-acid reductoisomerase; Provisional; Region: PRK05479 379731010286 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 379731010287 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 379731010288 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 379731010289 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 379731010290 putative valine binding site [chemical binding]; other site 379731010291 dimer interface [polypeptide binding]; other site 379731010292 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 379731010293 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 379731010294 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 379731010295 PYR/PP interface [polypeptide binding]; other site 379731010296 dimer interface [polypeptide binding]; other site 379731010297 TPP binding site [chemical binding]; other site 379731010298 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 379731010299 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 379731010300 TPP-binding site [chemical binding]; other site 379731010301 dimer interface [polypeptide binding]; other site 379731010302 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 379731010303 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 379731010304 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 379731010305 TPR motif; other site 379731010306 binding surface 379731010307 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 379731010308 Transglycosylase; Region: Transgly; pfam00912 379731010309 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 379731010310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 379731010311 Predicted kinase [General function prediction only]; Region: COG0645 379731010312 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 379731010313 active site 379731010314 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 379731010315 S-adenosylmethionine binding site [chemical binding]; other site 379731010316 TfoX C-terminal domain; Region: TfoX_C; pfam04994 379731010317 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 379731010318 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 379731010319 ligand binding site [chemical binding]; other site 379731010320 flexible hinge region; other site 379731010321 Protein of unknown function, DUF399; Region: DUF399; cl01139 379731010322 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 379731010323 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 379731010324 Walker A/P-loop; other site 379731010325 ATP binding site [chemical binding]; other site 379731010326 Q-loop/lid; other site 379731010327 ABC transporter signature motif; other site 379731010328 Walker B; other site 379731010329 D-loop; other site 379731010330 H-loop/switch region; other site 379731010331 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 379731010332 ABC-ATPase subunit interface; other site 379731010333 dimer interface [polypeptide binding]; other site 379731010334 putative PBP binding regions; other site 379731010335 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 379731010336 iron-sulfur cluster [ion binding]; other site 379731010337 [2Fe-2S] cluster binding site [ion binding]; other site 379731010338 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 379731010339 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 379731010340 Family description; Region: DsbD_2; pfam13386 379731010341 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 379731010342 DsbD alpha interface [polypeptide binding]; other site 379731010343 catalytic residues [active] 379731010344 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 379731010345 Dehydroquinase class II; Region: DHquinase_II; pfam01220 379731010346 active site 379731010347 trimer interface [polypeptide binding]; other site 379731010348 dimer interface [polypeptide binding]; other site 379731010349 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 379731010350 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 379731010351 carboxyltransferase (CT) interaction site; other site 379731010352 biotinylation site [posttranslational modification]; other site 379731010353 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 379731010354 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 379731010355 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 379731010356 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 379731010357 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 379731010358 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 379731010359 S-adenosylmethionine binding site [chemical binding]; other site 379731010360 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 379731010361 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 379731010362 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 379731010363 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 379731010364 FMN binding site [chemical binding]; other site 379731010365 active site 379731010366 catalytic residues [active] 379731010367 substrate binding site [chemical binding]; other site 379731010368 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 379731010369 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 379731010370 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 379731010371 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 379731010372 purine monophosphate binding site [chemical binding]; other site 379731010373 dimer interface [polypeptide binding]; other site 379731010374 putative catalytic residues [active] 379731010375 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 379731010376 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 379731010377 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 379731010378 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 379731010379 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 379731010380 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 379731010381 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 379731010382 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 379731010383 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 379731010384 dimer interface [polypeptide binding]; other site 379731010385 phosphorylation site [posttranslational modification] 379731010386 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 379731010387 ATP binding site [chemical binding]; other site 379731010388 Mg2+ binding site [ion binding]; other site 379731010389 G-X-G motif; other site 379731010390 Response regulator receiver domain; Region: Response_reg; pfam00072 379731010391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731010392 active site 379731010393 phosphorylation site [posttranslational modification] 379731010394 intermolecular recognition site; other site 379731010395 dimerization interface [polypeptide binding]; other site 379731010396 Response regulator receiver domain; Region: Response_reg; pfam00072 379731010397 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731010398 active site 379731010399 phosphorylation site [posttranslational modification] 379731010400 intermolecular recognition site; other site 379731010401 dimerization interface [polypeptide binding]; other site 379731010402 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 379731010403 Cytochrome P450; Region: p450; cl12078 379731010404 Predicted integral membrane protein [Function unknown]; Region: COG0392 379731010405 Predicted permeases [General function prediction only]; Region: COG0679 379731010406 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 379731010407 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 379731010408 NADP binding site [chemical binding]; other site 379731010409 active site 379731010410 putative substrate binding site [chemical binding]; other site 379731010411 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 379731010412 hypothetical protein; Provisional; Region: PRK08960 379731010413 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 379731010414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731010415 homodimer interface [polypeptide binding]; other site 379731010416 catalytic residue [active] 379731010417 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 379731010418 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 379731010419 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 379731010420 active site 379731010421 nucleotide binding site [chemical binding]; other site 379731010422 HIGH motif; other site 379731010423 KMSKS motif; other site 379731010424 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 379731010425 Na binding site [ion binding]; other site 379731010426 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 379731010427 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 379731010428 dimer interface [polypeptide binding]; other site 379731010429 phosphorylation site [posttranslational modification] 379731010430 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 379731010431 ATP binding site [chemical binding]; other site 379731010432 Mg2+ binding site [ion binding]; other site 379731010433 G-X-G motif; other site 379731010434 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 379731010435 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731010436 active site 379731010437 phosphorylation site [posttranslational modification] 379731010438 intermolecular recognition site; other site 379731010439 dimerization interface [polypeptide binding]; other site 379731010440 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 379731010441 Walker A motif; other site 379731010442 ATP binding site [chemical binding]; other site 379731010443 Walker B motif; other site 379731010444 arginine finger; other site 379731010445 poly(A) polymerase; Region: pcnB; TIGR01942 379731010446 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 379731010447 active site 379731010448 NTP binding site [chemical binding]; other site 379731010449 metal binding triad [ion binding]; metal-binding site 379731010450 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 379731010451 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 379731010452 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 379731010453 catalytic center binding site [active] 379731010454 ATP binding site [chemical binding]; other site 379731010455 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 379731010456 active site 379731010457 metal binding site [ion binding]; metal-binding site 379731010458 oligomerization interface [polypeptide binding]; other site 379731010459 pantoate--beta-alanine ligase; Region: panC; TIGR00018 379731010460 Pantoate-beta-alanine ligase; Region: PanC; cd00560 379731010461 active site 379731010462 ATP-binding site [chemical binding]; other site 379731010463 pantoate-binding site; other site 379731010464 HXXH motif; other site 379731010465 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 379731010466 tetramerization interface [polypeptide binding]; other site 379731010467 active site 379731010468 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 379731010469 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 379731010470 active site 379731010471 dimer interface [polypeptide binding]; other site 379731010472 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 379731010473 dimer interface [polypeptide binding]; other site 379731010474 active site 379731010475 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 379731010476 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 379731010477 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 379731010478 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 379731010479 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 379731010480 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 379731010481 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 379731010482 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 379731010483 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 379731010484 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 379731010485 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 379731010486 RNase E interface [polypeptide binding]; other site 379731010487 trimer interface [polypeptide binding]; other site 379731010488 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 379731010489 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 379731010490 RNase E interface [polypeptide binding]; other site 379731010491 trimer interface [polypeptide binding]; other site 379731010492 active site 379731010493 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 379731010494 putative nucleic acid binding region [nucleotide binding]; other site 379731010495 G-X-X-G motif; other site 379731010496 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 379731010497 RNA binding site [nucleotide binding]; other site 379731010498 domain interface; other site 379731010499 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 379731010500 16S/18S rRNA binding site [nucleotide binding]; other site 379731010501 S13e-L30e interaction site [polypeptide binding]; other site 379731010502 25S rRNA binding site [nucleotide binding]; other site 379731010503 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 379731010504 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 379731010505 RNA binding site [nucleotide binding]; other site 379731010506 active site 379731010507 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 379731010508 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 379731010509 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 379731010510 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 379731010511 translation initiation factor IF-2; Region: IF-2; TIGR00487 379731010512 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 379731010513 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 379731010514 G1 box; other site 379731010515 putative GEF interaction site [polypeptide binding]; other site 379731010516 GTP/Mg2+ binding site [chemical binding]; other site 379731010517 Switch I region; other site 379731010518 G2 box; other site 379731010519 G3 box; other site 379731010520 Switch II region; other site 379731010521 G4 box; other site 379731010522 G5 box; other site 379731010523 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 379731010524 Translation-initiation factor 2; Region: IF-2; pfam11987 379731010525 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 379731010526 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 379731010527 NusA N-terminal domain; Region: NusA_N; pfam08529 379731010528 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 379731010529 RNA binding site [nucleotide binding]; other site 379731010530 homodimer interface [polypeptide binding]; other site 379731010531 NusA-like KH domain; Region: KH_5; pfam13184 379731010532 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 379731010533 G-X-X-G motif; other site 379731010534 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 379731010535 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 379731010536 ribosome maturation protein RimP; Reviewed; Region: PRK00092 379731010537 Sm and related proteins; Region: Sm_like; cl00259 379731010538 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 379731010539 putative oligomer interface [polypeptide binding]; other site 379731010540 putative RNA binding site [nucleotide binding]; other site 379731010541 Preprotein translocase SecG subunit; Region: SecG; pfam03840 379731010542 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 379731010543 triosephosphate isomerase; Provisional; Region: PRK14567 379731010544 substrate binding site [chemical binding]; other site 379731010545 dimer interface [polypeptide binding]; other site 379731010546 catalytic triad [active] 379731010547 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 379731010548 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 379731010549 active site 379731010550 substrate binding site [chemical binding]; other site 379731010551 metal binding site [ion binding]; metal-binding site 379731010552 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 379731010553 dihydropteroate synthase; Region: DHPS; TIGR01496 379731010554 substrate binding pocket [chemical binding]; other site 379731010555 dimer interface [polypeptide binding]; other site 379731010556 inhibitor binding site; inhibition site 379731010557 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 379731010558 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 379731010559 Walker A motif; other site 379731010560 ATP binding site [chemical binding]; other site 379731010561 Walker B motif; other site 379731010562 arginine finger; other site 379731010563 Peptidase family M41; Region: Peptidase_M41; pfam01434 379731010564 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 379731010565 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 379731010566 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 379731010567 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 379731010568 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 379731010569 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 379731010570 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 379731010571 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 379731010572 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 379731010573 ATP-grasp domain; Region: ATP-grasp_4; cl17255 379731010574 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 379731010575 IMP binding site; other site 379731010576 dimer interface [polypeptide binding]; other site 379731010577 interdomain contacts; other site 379731010578 partial ornithine binding site; other site 379731010579 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 379731010580 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 379731010581 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 379731010582 catalytic site [active] 379731010583 subunit interface [polypeptide binding]; other site 379731010584 dihydrodipicolinate reductase; Provisional; Region: PRK00048 379731010585 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 379731010586 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 379731010587 chaperone protein DnaJ; Provisional; Region: PRK10767 379731010588 DnaJ domain; Region: DnaJ; pfam00226 379731010589 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 379731010590 substrate binding site [polypeptide binding]; other site 379731010591 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 379731010592 Zn binding sites [ion binding]; other site 379731010593 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 379731010594 dimer interface [polypeptide binding]; other site 379731010595 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 379731010596 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 379731010597 nucleotide binding site [chemical binding]; other site 379731010598 NEF interaction site [polypeptide binding]; other site 379731010599 SBD interface [polypeptide binding]; other site 379731010600 GrpE; Region: GrpE; pfam01025 379731010601 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 379731010602 dimer interface [polypeptide binding]; other site 379731010603 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 379731010604 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 379731010605 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 379731010606 Walker A/P-loop; other site 379731010607 ATP binding site [chemical binding]; other site 379731010608 Q-loop/lid; other site 379731010609 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 379731010610 ABC transporter signature motif; other site 379731010611 Walker B; other site 379731010612 D-loop; other site 379731010613 H-loop/switch region; other site 379731010614 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 379731010615 metal binding site 2 [ion binding]; metal-binding site 379731010616 putative DNA binding helix; other site 379731010617 metal binding site 1 [ion binding]; metal-binding site 379731010618 dimer interface [polypeptide binding]; other site 379731010619 structural Zn2+ binding site [ion binding]; other site 379731010620 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 379731010621 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 379731010622 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 379731010623 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 379731010624 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 379731010625 putative coenzyme Q binding site [chemical binding]; other site 379731010626 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 379731010627 SmpB-tmRNA interface; other site 379731010628 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 379731010629 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 379731010630 DNA-binding site [nucleotide binding]; DNA binding site 379731010631 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 379731010632 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 379731010633 L-lactate permease; Region: Lactate_perm; cl00701 379731010634 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 379731010635 Cysteine-rich domain; Region: CCG; pfam02754 379731010636 Cysteine-rich domain; Region: CCG; pfam02754 379731010637 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 379731010638 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 379731010639 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 379731010640 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 379731010641 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 379731010642 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 379731010643 FAD binding domain; Region: FAD_binding_4; pfam01565 379731010644 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 379731010645 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 379731010646 Cysteine-rich domain; Region: CCG; pfam02754 379731010647 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 379731010648 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 379731010649 active site 379731010650 DNA binding site [nucleotide binding] 379731010651 Int/Topo IB signature motif; other site 379731010652 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 379731010653 active site 379731010654 DNA binding site [nucleotide binding] 379731010655 Int/Topo IB signature motif; other site 379731010656 Transposase; Region: HTH_Tnp_1; pfam01527 379731010657 HTH-like domain; Region: HTH_21; pfam13276 379731010658 Integrase core domain; Region: rve; pfam00665 379731010659 Integrase core domain; Region: rve_3; pfam13683 379731010660 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 379731010661 DNA binding site [nucleotide binding] 379731010662 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 379731010663 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 379731010664 Chlorite dismutase; Region: Chlor_dismutase; cl01280 379731010665 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 379731010666 active site 379731010667 catalytic residues [active] 379731010668 DNA binding site [nucleotide binding] 379731010669 Int/Topo IB signature motif; other site 379731010670 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 379731010671 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 379731010672 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 379731010673 active site 379731010674 catalytic residues [active] 379731010675 DNA binding site [nucleotide binding] 379731010676 Int/Topo IB signature motif; other site 379731010677 Y-family of DNA polymerases; Region: PolY; cl12025 379731010678 active site 379731010679 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 379731010680 Catalytic site [active] 379731010681 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 379731010682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731010683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731010684 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 379731010685 putative effector binding pocket; other site 379731010686 putative dimerization interface [polypeptide binding]; other site 379731010687 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 379731010688 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 379731010689 active site 379731010690 catalytic tetrad [active] 379731010691 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 379731010692 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 379731010693 HlyD family secretion protein; Region: HlyD_3; pfam13437 379731010694 Outer membrane efflux protein; Region: OEP; pfam02321 379731010695 Outer membrane efflux protein; Region: OEP; pfam02321 379731010696 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_3; cd06217 379731010697 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 379731010698 FAD binding pocket [chemical binding]; other site 379731010699 FAD binding motif [chemical binding]; other site 379731010700 phosphate binding motif [ion binding]; other site 379731010701 beta-alpha-beta structure motif; other site 379731010702 NAD binding pocket [chemical binding]; other site 379731010703 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 379731010704 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 379731010705 catalytic loop [active] 379731010706 iron binding site [ion binding]; other site 379731010707 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 379731010708 heme-binding residues [chemical binding]; other site 379731010709 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 379731010710 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 379731010711 Domain of unknown function (DUF305); Region: DUF305; cl17794 379731010712 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 379731010713 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731010714 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 379731010715 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 379731010716 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 379731010717 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731010718 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 379731010719 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 379731010720 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 379731010721 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 379731010722 Multicopper oxidase; Region: Cu-oxidase; pfam00394 379731010723 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 379731010724 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 379731010725 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 379731010726 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 379731010727 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 379731010728 Predicted metal-binding protein [General function prediction only]; Region: COG3019 379731010729 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 379731010730 metal-binding site [ion binding] 379731010731 YHS domain; Region: YHS; pfam04945 379731010732 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 379731010733 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 379731010734 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 379731010735 motif II; other site 379731010736 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 379731010737 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731010738 active site 379731010739 phosphorylation site [posttranslational modification] 379731010740 intermolecular recognition site; other site 379731010741 dimerization interface [polypeptide binding]; other site 379731010742 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 379731010743 DNA binding site [nucleotide binding] 379731010744 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 379731010745 HAMP domain; Region: HAMP; pfam00672 379731010746 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 379731010747 dimer interface [polypeptide binding]; other site 379731010748 phosphorylation site [posttranslational modification] 379731010749 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 379731010750 ATP binding site [chemical binding]; other site 379731010751 Mg2+ binding site [ion binding]; other site 379731010752 G-X-G motif; other site 379731010753 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731010754 Integrase core domain; Region: rve; pfam00665 379731010755 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731010756 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 379731010757 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 379731010758 Walker A motif; other site 379731010759 ATP binding site [chemical binding]; other site 379731010760 Walker B motif; other site 379731010761 arginine finger; other site 379731010762 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 379731010763 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 379731010764 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 379731010765 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 379731010766 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 379731010767 putative active site [active] 379731010768 putative NTP binding site [chemical binding]; other site 379731010769 putative nucleic acid binding site [nucleotide binding]; other site 379731010770 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 379731010771 Transposase domain (DUF772); Region: DUF772; pfam05598 379731010772 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 379731010773 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 379731010774 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 379731010775 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 379731010776 Transposase; Region: HTH_Tnp_1; pfam01527 379731010777 potassium/proton antiporter; Reviewed; Region: PRK05326 379731010778 TrkA-C domain; Region: TrkA_C; pfam02080 379731010779 Transporter associated domain; Region: CorC_HlyC; smart01091 379731010780 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 379731010781 tetramer interfaces [polypeptide binding]; other site 379731010782 binuclear metal-binding site [ion binding]; other site 379731010783 pyruvate kinase; Provisional; Region: PRK14725 379731010784 active site 379731010785 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 379731010786 active site 379731010787 DNA binding site [nucleotide binding] 379731010788 Int/Topo IB signature motif; other site 379731010789 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 379731010790 EamA-like transporter family; Region: EamA; pfam00892 379731010791 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731010792 Integrase core domain; Region: rve; pfam00665 379731010793 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 379731010794 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 379731010795 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 379731010796 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 379731010797 Walker A motif; other site 379731010798 ATP binding site [chemical binding]; other site 379731010799 Walker B motif; other site 379731010800 EamA-like transporter family; Region: EamA; pfam00892 379731010801 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 379731010802 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 379731010803 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 379731010804 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 379731010805 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 379731010806 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 379731010807 motif II; other site 379731010808 Heavy-metal-associated domain; Region: HMA; pfam00403 379731010809 metal-binding site [ion binding] 379731010810 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 379731010811 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 379731010812 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 379731010813 DNA binding residues [nucleotide binding] 379731010814 dimer interface [polypeptide binding]; other site 379731010815 putative metal binding site [ion binding]; other site 379731010816 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 379731010817 ATP binding site [chemical binding]; other site 379731010818 Mg2+ binding site [ion binding]; other site 379731010819 G-X-G motif; other site 379731010820 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 379731010821 Helix-turn-helix domain; Region: HTH_38; pfam13936 379731010822 Integrase core domain; Region: rve; pfam00665 379731010823 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 379731010824 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 379731010825 dimerization interface [polypeptide binding]; other site 379731010826 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 379731010827 dimer interface [polypeptide binding]; other site 379731010828 phosphorylation site [posttranslational modification] 379731010829 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 379731010830 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731010831 active site 379731010832 phosphorylation site [posttranslational modification] 379731010833 intermolecular recognition site; other site 379731010834 dimerization interface [polypeptide binding]; other site 379731010835 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 379731010836 DNA binding site [nucleotide binding] 379731010837 outer membrane porin, OprD family; Region: OprD; pfam03573 379731010838 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 379731010839 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 379731010840 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 379731010841 HlyD family secretion protein; Region: HlyD_3; pfam13437 379731010842 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 379731010843 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 379731010844 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 379731010845 Homeodomain-like domain; Region: HTH_23; pfam13384 379731010846 Winged helix-turn helix; Region: HTH_29; pfam13551 379731010847 Winged helix-turn helix; Region: HTH_33; pfam13592 379731010848 DDE superfamily endonuclease; Region: DDE_3; pfam13358 379731010849 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 379731010850 Phospholipid methyltransferase; Region: PEMT; cl17370 379731010851 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 379731010852 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 379731010853 DNA binding residues [nucleotide binding] 379731010854 dimer interface [polypeptide binding]; other site 379731010855 mercury binding site [ion binding]; other site 379731010856 MerT mercuric transport protein; Region: MerT; cl03578 379731010857 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 379731010858 metal-binding site [ion binding] 379731010859 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 379731010860 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 379731010861 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG1569 379731010862 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 379731010863 active site 379731010864 catalytic residues [active] 379731010865 DNA binding site [nucleotide binding] 379731010866 Int/Topo IB signature motif; other site 379731010867 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 379731010868 Family description; Region: UvrD_C_2; pfam13538 379731010869 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 379731010870 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 379731010871 ATP binding site [chemical binding]; other site 379731010872 putative Mg++ binding site [ion binding]; other site 379731010873 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 379731010874 ATP-binding site [chemical binding]; other site 379731010875 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 379731010876 Protein of unknown function DUF262; Region: DUF262; pfam03235 379731010877 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 379731010878 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 379731010879 ATP binding site [chemical binding]; other site 379731010880 putative Mg++ binding site [ion binding]; other site 379731010881 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 379731010882 nucleotide binding region [chemical binding]; other site 379731010883 ATP-binding site [chemical binding]; other site 379731010884 Predicted transcriptional regulator [Transcription]; Region: COG2378 379731010885 WYL domain; Region: WYL; pfam13280 379731010886 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 379731010887 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 379731010888 Walker A motif; other site 379731010889 ATP binding site [chemical binding]; other site 379731010890 Walker B motif; other site 379731010891 arginine finger; other site 379731010892 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 379731010893 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 379731010894 Walker A motif; other site 379731010895 ATP binding site [chemical binding]; other site 379731010896 Walker B motif; other site 379731010897 arginine finger; other site 379731010898 WYL domain; Region: WYL; pfam13280 379731010899 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 379731010900 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 379731010901 putative regulator PrlF; Provisional; Region: PRK09974 379731010902 DEAD-like helicases superfamily; Region: DEXDc; smart00487 379731010903 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 379731010904 ATP binding site [chemical binding]; other site 379731010905 putative Mg++ binding site [ion binding]; other site 379731010906 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 379731010907 nucleotide binding region [chemical binding]; other site 379731010908 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 379731010909 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 379731010910 tellurite resistance protein terB; Region: terB; cd07176 379731010911 putative metal binding site [ion binding]; other site 379731010912 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 379731010913 active site 379731010914 catalytic site [active] 379731010915 substrate binding site [chemical binding]; other site 379731010916 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 379731010917 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 379731010918 motif II; other site 379731010919 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 379731010920 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731010921 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 379731010922 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 379731010923 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 379731010924 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 379731010925 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 379731010926 nudix motif; other site 379731010927 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 379731010928 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731010929 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 379731010930 dimer interface [polypeptide binding]; other site 379731010931 phosphorylation site [posttranslational modification] 379731010932 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 379731010933 ATP binding site [chemical binding]; other site 379731010934 Mg2+ binding site [ion binding]; other site 379731010935 G-X-G motif; other site 379731010936 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731010937 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731010938 active site 379731010939 phosphorylation site [posttranslational modification] 379731010940 intermolecular recognition site; other site 379731010941 dimerization interface [polypeptide binding]; other site 379731010942 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 379731010943 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 379731010944 Walker A/P-loop; other site 379731010945 ATP binding site [chemical binding]; other site 379731010946 Q-loop/lid; other site 379731010947 ABC transporter signature motif; other site 379731010948 Walker B; other site 379731010949 D-loop; other site 379731010950 H-loop/switch region; other site 379731010951 TOBE domain; Region: TOBE_2; pfam08402 379731010952 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 379731010953 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 379731010954 active site 379731010955 catalytic site [active] 379731010956 maltose O-acetyltransferase; Provisional; Region: PRK10092 379731010957 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 379731010958 active site 379731010959 substrate binding site [chemical binding]; other site 379731010960 trimer interface [polypeptide binding]; other site 379731010961 CoA binding site [chemical binding]; other site 379731010962 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 379731010963 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 379731010964 C-terminal domain interface [polypeptide binding]; other site 379731010965 GSH binding site (G-site) [chemical binding]; other site 379731010966 dimer interface [polypeptide binding]; other site 379731010967 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 379731010968 N-terminal domain interface [polypeptide binding]; other site 379731010969 dimer interface [polypeptide binding]; other site 379731010970 substrate binding pocket (H-site) [chemical binding]; other site 379731010971 transcriptional regulator MalT; Provisional; Region: PRK04841 379731010972 AAA ATPase domain; Region: AAA_16; pfam13191 379731010973 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 379731010974 DNA binding residues [nucleotide binding] 379731010975 dimerization interface [polypeptide binding]; other site 379731010976 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 379731010977 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731010978 dimer interface [polypeptide binding]; other site 379731010979 conserved gate region; other site 379731010980 putative PBP binding loops; other site 379731010981 ABC-ATPase subunit interface; other site 379731010982 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731010983 dimer interface [polypeptide binding]; other site 379731010984 conserved gate region; other site 379731010985 putative PBP binding loops; other site 379731010986 ABC-ATPase subunit interface; other site 379731010987 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 379731010988 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 379731010989 alpha-amylase; Reviewed; Region: malS; PRK09505 379731010990 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 379731010991 active site 379731010992 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 379731010993 active site 379731010994 catalytic site [active] 379731010995 catalytic site [active] 379731010996 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 379731010997 active site 379731010998 substrate binding site [chemical binding]; other site 379731010999 ATP binding site [chemical binding]; other site 379731011000 Alpha amylase catalytic domain found in archaeal, bacterial, and plant Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_plant_AmyA; cd11314 379731011001 active site 379731011002 Ca binding site [ion binding]; other site 379731011003 catalytic site [active] 379731011004 Domain of unknown function (DUF1921); Region: DUF1921; pfam09081 379731011005 Glucan 1,4-alpha-maltotetraohydrolase (alpha-MTH), C-terminal CBM20 (carbohydrate-binding module, family 20) domain. Alpha-MTH, also known as maltotetraose-forming exo-amylase or G4-amylase, is an exo-amylase found in bacteria that degrades starch from...; Region: CBM20_alpha_MTH; cd05810 379731011006 starch-binding site 2 [chemical binding]; other site 379731011007 starch-binding site 1 [chemical binding]; other site 379731011008 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 379731011009 trimer interface; other site 379731011010 sugar binding site [chemical binding]; other site 379731011011 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 379731011012 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 379731011013 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 379731011014 active site 379731011015 catalytic tetrad [active] 379731011016 betaine aldehyde dehydrogenase; Region: PLN02467 379731011017 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 379731011018 tetrameric interface [polypeptide binding]; other site 379731011019 activator binding site; other site 379731011020 NADP binding site [chemical binding]; other site 379731011021 substrate binding site [chemical binding]; other site 379731011022 catalytic residues [active] 379731011023 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 379731011024 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 379731011025 active site 379731011026 intersubunit interface [polypeptide binding]; other site 379731011027 catalytic residue [active] 379731011028 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 379731011029 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 379731011030 putative active site [active] 379731011031 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 379731011032 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 379731011033 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 379731011034 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 379731011035 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 379731011036 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 379731011037 putative active site [active] 379731011038 glucokinase; Provisional; Region: glk; PRK00292 379731011039 glucokinase, proteobacterial type; Region: glk; TIGR00749 379731011040 phosphogluconate dehydratase; Validated; Region: PRK09054 379731011041 6-phosphogluconate dehydratase; Region: edd; TIGR01196 379731011042 hypothetical protein; Validated; Region: PRK09039 379731011043 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731011044 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731011045 putative substrate translocation pore; other site 379731011046 Fe2+ transport protein; Region: Iron_transport; pfam10634 379731011047 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 379731011048 Iron permease FTR1 family; Region: FTR1; cl00475 379731011049 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 379731011050 4Fe-4S binding domain; Region: Fer4_5; pfam12801 379731011051 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 379731011052 FeS/SAM binding site; other site 379731011053 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 379731011054 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 379731011055 ATP cone domain; Region: ATP-cone; pfam03477 379731011056 Class III ribonucleotide reductase; Region: RNR_III; cd01675 379731011057 effector binding site; other site 379731011058 active site 379731011059 Zn binding site [ion binding]; other site 379731011060 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 379731011061 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 379731011062 ligand binding site [chemical binding]; other site 379731011063 flexible hinge region; other site 379731011064 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 379731011065 putative switch regulator; other site 379731011066 non-specific DNA interactions [nucleotide binding]; other site 379731011067 DNA binding site [nucleotide binding] 379731011068 sequence specific DNA binding site [nucleotide binding]; other site 379731011069 putative cAMP binding site [chemical binding]; other site 379731011070 DGC domain; Region: DGC; pfam08859 379731011071 putative protease; Provisional; Region: PRK15447 379731011072 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 379731011073 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 379731011074 Peptidase family U32; Region: Peptidase_U32; pfam01136 379731011075 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 379731011076 GAF domain; Region: GAF; pfam01590 379731011077 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 379731011078 Walker A motif; other site 379731011079 ATP binding site [chemical binding]; other site 379731011080 Walker B motif; other site 379731011081 arginine finger; other site 379731011082 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 379731011083 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 379731011084 Hemerythrin-like domain; Region: Hr-like; cd12108 379731011085 Fe binding site [ion binding]; other site 379731011086 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 379731011087 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 379731011088 ligand binding site [chemical binding]; other site 379731011089 flexible hinge region; other site 379731011090 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 379731011091 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 379731011092 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 379731011093 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 379731011094 metal ion-dependent adhesion site (MIDAS); other site 379731011095 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 379731011096 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 379731011097 Low-spin heme binding site [chemical binding]; other site 379731011098 D-pathway; other site 379731011099 K-pathway; other site 379731011100 Binuclear center (active site) [active] 379731011101 Putative proton exit pathway; other site 379731011102 Putative water exit pathway; other site 379731011103 Cytochrome c; Region: Cytochrom_C; pfam00034 379731011104 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 379731011105 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 379731011106 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 379731011107 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 379731011108 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 379731011109 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 379731011110 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 379731011111 Cytochrome c; Region: Cytochrom_C; cl11414 379731011112 Ethylbenzene dehydrogenase; Region: EB_dh; smart00887 379731011113 putative ligand binding site [chemical binding]; other site 379731011114 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 379731011115 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 379731011116 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 379731011117 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 379731011118 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 379731011119 MoxR-like ATPases [General function prediction only]; Region: COG0714 379731011120 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 379731011121 Walker A motif; other site 379731011122 ATP binding site [chemical binding]; other site 379731011123 Walker B motif; other site 379731011124 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 379731011125 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 379731011126 Subunit I/III interface [polypeptide binding]; other site 379731011127 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 379731011128 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 379731011129 FeS/SAM binding site; other site 379731011130 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 379731011131 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 379731011132 active site 379731011133 SAM binding site [chemical binding]; other site 379731011134 homodimer interface [polypeptide binding]; other site 379731011135 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 379731011136 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 379731011137 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 379731011138 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 379731011139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731011140 LysR substrate binding domain; Region: LysR_substrate; pfam03466 379731011141 dimerization interface [polypeptide binding]; other site 379731011142 HPP family; Region: HPP; pfam04982 379731011143 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 379731011144 FOG: CBS domain [General function prediction only]; Region: COG0517 379731011145 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 379731011146 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 379731011147 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731011148 dimer interface [polypeptide binding]; other site 379731011149 putative CheW interface [polypeptide binding]; other site 379731011150 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 379731011151 short chain dehydrogenase; Provisional; Region: PRK06500 379731011152 classical (c) SDRs; Region: SDR_c; cd05233 379731011153 NAD(P) binding site [chemical binding]; other site 379731011154 active site 379731011155 NnrS protein; Region: NnrS; pfam05940 379731011156 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 379731011157 NosL; Region: NosL; pfam05573 379731011158 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 379731011159 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 379731011160 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 379731011161 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 379731011162 Walker A/P-loop; other site 379731011163 ATP binding site [chemical binding]; other site 379731011164 Q-loop/lid; other site 379731011165 ABC transporter signature motif; other site 379731011166 Walker B; other site 379731011167 D-loop; other site 379731011168 H-loop/switch region; other site 379731011169 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 379731011170 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 379731011171 nitrous-oxide reductase; Validated; Region: PRK02888 379731011172 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 379731011173 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 379731011174 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 379731011175 4Fe-4S binding domain; Region: Fer4_5; pfam12801 379731011176 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 379731011177 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 379731011178 active site 379731011179 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 379731011180 Protein of unknown function, DUF488; Region: DUF488; cl01246 379731011181 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 379731011182 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 379731011183 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 379731011184 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 379731011185 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 379731011186 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 379731011187 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 379731011188 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 379731011189 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 379731011190 CheB methylesterase; Region: CheB_methylest; pfam01339 379731011191 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 379731011192 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 379731011193 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 379731011194 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 379731011195 PAS domain; Region: PAS_9; pfam13426 379731011196 putative active site [active] 379731011197 heme pocket [chemical binding]; other site 379731011198 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 379731011199 PAS domain; Region: PAS_10; pfam13596 379731011200 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 379731011201 putative active site [active] 379731011202 heme pocket [chemical binding]; other site 379731011203 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 379731011204 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 379731011205 putative active site [active] 379731011206 heme pocket [chemical binding]; other site 379731011207 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 379731011208 dimer interface [polypeptide binding]; other site 379731011209 phosphorylation site [posttranslational modification] 379731011210 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 379731011211 ATP binding site [chemical binding]; other site 379731011212 Mg2+ binding site [ion binding]; other site 379731011213 G-X-G motif; other site 379731011214 Response regulator receiver domain; Region: Response_reg; pfam00072 379731011215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731011216 active site 379731011217 phosphorylation site [posttranslational modification] 379731011218 intermolecular recognition site; other site 379731011219 dimerization interface [polypeptide binding]; other site 379731011220 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 379731011221 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 379731011222 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 379731011223 putative active site [active] 379731011224 heme pocket [chemical binding]; other site 379731011225 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 379731011226 Walker A motif; other site 379731011227 ATP binding site [chemical binding]; other site 379731011228 Walker B motif; other site 379731011229 arginine finger; other site 379731011230 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 379731011231 cofactor binding site; other site 379731011232 metal binding site [ion binding]; metal-binding site 379731011233 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 379731011234 aromatic arch; other site 379731011235 DCoH dimer interaction site [polypeptide binding]; other site 379731011236 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 379731011237 DCoH tetramer interaction site [polypeptide binding]; other site 379731011238 substrate binding site [chemical binding]; other site 379731011239 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 379731011240 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 379731011241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731011242 homodimer interface [polypeptide binding]; other site 379731011243 catalytic residue [active] 379731011244 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 379731011245 cyanate hydratase; Validated; Region: PRK02866 379731011246 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 379731011247 oligomer interface [polypeptide binding]; other site 379731011248 active site 379731011249 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 379731011250 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 379731011251 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 379731011252 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 379731011253 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 379731011254 tetramer interface [polypeptide binding]; other site 379731011255 heme binding pocket [chemical binding]; other site 379731011256 cytosine permease; Provisional; Region: codB; PRK11017 379731011257 Na binding site [ion binding]; other site 379731011258 cytosine deaminase; Provisional; Region: PRK09230 379731011259 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 379731011260 active site 379731011261 Cytochrome c; Region: Cytochrom_C; cl11414 379731011262 Cytochrome c; Region: Cytochrom_C; cl11414 379731011263 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 379731011264 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 379731011265 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 379731011266 PhnA protein; Region: PhnA; pfam03831 379731011267 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 379731011268 DNA-binding site [nucleotide binding]; DNA binding site 379731011269 RNA-binding motif; other site 379731011270 Predicted membrane protein [Function unknown]; Region: COG3326 379731011271 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 379731011272 Uncharacterized conserved protein [Function unknown]; Region: COG1432 379731011273 putative metal binding site [ion binding]; other site 379731011274 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 379731011275 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 379731011276 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 379731011277 substrate binding pocket [chemical binding]; other site 379731011278 membrane-bound complex binding site; other site 379731011279 hinge residues; other site 379731011280 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731011281 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731011282 metal binding site [ion binding]; metal-binding site 379731011283 active site 379731011284 I-site; other site 379731011285 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 379731011286 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 379731011287 TM-ABC transporter signature motif; other site 379731011288 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 379731011289 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 379731011290 TM-ABC transporter signature motif; other site 379731011291 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 379731011292 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 379731011293 Walker A/P-loop; other site 379731011294 ATP binding site [chemical binding]; other site 379731011295 Q-loop/lid; other site 379731011296 ABC transporter signature motif; other site 379731011297 Walker B; other site 379731011298 D-loop; other site 379731011299 H-loop/switch region; other site 379731011300 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 379731011301 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 379731011302 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 379731011303 putative ligand binding site [chemical binding]; other site 379731011304 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 379731011305 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 379731011306 active site 379731011307 metal binding site [ion binding]; metal-binding site 379731011308 oxidase reductase; Provisional; Region: PTZ00273 379731011309 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 379731011310 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 379731011311 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 379731011312 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 379731011313 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 379731011314 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_1; cd08352 379731011315 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 379731011316 putative metal binding site [ion binding]; other site 379731011317 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 379731011318 Uncharacterized conserved protein [Function unknown]; Region: COG2128 379731011319 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 379731011320 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731011321 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 379731011322 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 379731011323 conserved cys residue [active] 379731011324 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731011325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731011326 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731011327 Major Facilitator Superfamily; Region: MFS_1; pfam07690 379731011328 putative substrate translocation pore; other site 379731011329 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 379731011330 active site 379731011331 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 379731011332 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731011333 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 379731011334 pyrimidine utilization protein A; Region: RutA; TIGR03612 379731011335 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 379731011336 active site 379731011337 dimer interface [polypeptide binding]; other site 379731011338 non-prolyl cis peptide bond; other site 379731011339 insertion regions; other site 379731011340 Isochorismatase family; Region: Isochorismatase; pfam00857 379731011341 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 379731011342 catalytic triad [active] 379731011343 conserved cis-peptide bond; other site 379731011344 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 379731011345 homotrimer interaction site [polypeptide binding]; other site 379731011346 putative active site [active] 379731011347 pyrimidine utilization protein D; Region: RutD; TIGR03611 379731011348 Serine hydrolase (FSH1); Region: FSH1; pfam03959 379731011349 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 379731011350 putative FMN binding site [chemical binding]; other site 379731011351 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 379731011352 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 379731011353 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 379731011354 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 379731011355 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 379731011356 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 379731011357 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 379731011358 dimerization interface [polypeptide binding]; other site 379731011359 Uncharacterized conserved protein [Function unknown]; Region: COG1739 379731011360 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 379731011361 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 379731011362 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 379731011363 active site 379731011364 purine riboside binding site [chemical binding]; other site 379731011365 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 379731011366 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 379731011367 putative substrate translocation pore; other site 379731011368 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 379731011369 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731011370 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 379731011371 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 379731011372 metal-binding site [ion binding] 379731011373 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 379731011374 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 379731011375 metal-binding site [ion binding] 379731011376 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 379731011377 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 379731011378 metal-binding site [ion binding] 379731011379 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 379731011380 Soluble P-type ATPase [General function prediction only]; Region: COG4087 379731011381 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 379731011382 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 379731011383 DNA binding residues [nucleotide binding] 379731011384 dimer interface [polypeptide binding]; other site 379731011385 copper binding site [ion binding]; other site 379731011386 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 379731011387 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 379731011388 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 379731011389 dimerization interface [polypeptide binding]; other site 379731011390 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731011391 dimer interface [polypeptide binding]; other site 379731011392 putative CheW interface [polypeptide binding]; other site 379731011393 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 379731011394 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 379731011395 heme binding site [chemical binding]; other site 379731011396 ferroxidase pore; other site 379731011397 ferroxidase diiron center [ion binding]; other site 379731011398 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 379731011399 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 379731011400 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 379731011401 putative membrane fusion protein; Region: TIGR02828 379731011402 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 379731011403 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 379731011404 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 379731011405 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 379731011406 ATP binding site [chemical binding]; other site 379731011407 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 379731011408 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 379731011409 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731011410 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 379731011411 DNA binding site [nucleotide binding] 379731011412 active site 379731011413 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 379731011414 active site 379731011415 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 379731011416 dimerization interface [polypeptide binding]; other site 379731011417 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731011418 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731011419 dimer interface [polypeptide binding]; other site 379731011420 putative CheW interface [polypeptide binding]; other site 379731011421 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 379731011422 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 379731011423 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 379731011424 amidase catalytic site [active] 379731011425 Zn binding residues [ion binding]; other site 379731011426 substrate binding site [chemical binding]; other site 379731011427 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 379731011428 Active_site [active] 379731011429 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 379731011430 conserved cys residue [active] 379731011431 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731011432 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 379731011433 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 379731011434 Predicted ATPase [General function prediction only]; Region: COG1485 379731011435 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 379731011436 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 379731011437 active site 379731011438 HIGH motif; other site 379731011439 dimer interface [polypeptide binding]; other site 379731011440 KMSKS motif; other site 379731011441 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 379731011442 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 379731011443 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 379731011444 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 379731011445 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 379731011446 dimerization interface [polypeptide binding]; other site 379731011447 active site 379731011448 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 379731011449 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 379731011450 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 379731011451 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 379731011452 Clp amino terminal domain; Region: Clp_N; pfam02861 379731011453 Clp amino terminal domain; Region: Clp_N; pfam02861 379731011454 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 379731011455 Walker A motif; other site 379731011456 ATP binding site [chemical binding]; other site 379731011457 Walker B motif; other site 379731011458 arginine finger; other site 379731011459 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 379731011460 Walker A motif; other site 379731011461 ATP binding site [chemical binding]; other site 379731011462 Walker B motif; other site 379731011463 arginine finger; other site 379731011464 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 379731011465 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 379731011466 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 379731011467 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 379731011468 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 379731011469 RNA binding surface [nucleotide binding]; other site 379731011470 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 379731011471 active site 379731011472 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 379731011473 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731011474 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 379731011475 dimer interface [polypeptide binding]; other site 379731011476 phosphorylation site [posttranslational modification] 379731011477 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 379731011478 ATP binding site [chemical binding]; other site 379731011479 Mg2+ binding site [ion binding]; other site 379731011480 G-X-G motif; other site 379731011481 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 379731011482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731011483 active site 379731011484 phosphorylation site [posttranslational modification] 379731011485 intermolecular recognition site; other site 379731011486 dimerization interface [polypeptide binding]; other site 379731011487 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 379731011488 Walker A motif; other site 379731011489 ATP binding site [chemical binding]; other site 379731011490 Walker B motif; other site 379731011491 arginine finger; other site 379731011492 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 379731011493 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 379731011494 Response regulator receiver domain; Region: Response_reg; pfam00072 379731011495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731011496 active site 379731011497 phosphorylation site [posttranslational modification] 379731011498 intermolecular recognition site; other site 379731011499 dimerization interface [polypeptide binding]; other site 379731011500 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731011501 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731011502 metal binding site [ion binding]; metal-binding site 379731011503 active site 379731011504 I-site; other site 379731011505 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 379731011506 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731011507 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731011508 dimer interface [polypeptide binding]; other site 379731011509 putative CheW interface [polypeptide binding]; other site 379731011510 hypothetical protein; Provisional; Region: PRK01254 379731011511 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 379731011512 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 379731011513 alanine racemase; Reviewed; Region: alr; PRK00053 379731011514 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 379731011515 active site 379731011516 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 379731011517 substrate binding site [chemical binding]; other site 379731011518 catalytic residues [active] 379731011519 dimer interface [polypeptide binding]; other site 379731011520 replicative DNA helicase; Provisional; Region: PRK05748 379731011521 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 379731011522 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 379731011523 Walker A motif; other site 379731011524 ATP binding site [chemical binding]; other site 379731011525 Walker B motif; other site 379731011526 DNA binding loops [nucleotide binding] 379731011527 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 379731011528 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 379731011529 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 379731011530 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 379731011531 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 379731011532 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 379731011533 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 379731011534 putative active site [active] 379731011535 heme pocket [chemical binding]; other site 379731011536 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 379731011537 dimer interface [polypeptide binding]; other site 379731011538 phosphorylation site [posttranslational modification] 379731011539 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 379731011540 ATP binding site [chemical binding]; other site 379731011541 Mg2+ binding site [ion binding]; other site 379731011542 G-X-G motif; other site 379731011543 Response regulator receiver domain; Region: Response_reg; pfam00072 379731011544 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731011545 active site 379731011546 phosphorylation site [posttranslational modification] 379731011547 intermolecular recognition site; other site 379731011548 dimerization interface [polypeptide binding]; other site 379731011549 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 379731011550 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 379731011551 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 379731011552 ribonuclease R; Region: RNase_R; TIGR02063 379731011553 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 379731011554 RNB domain; Region: RNB; pfam00773 379731011555 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 379731011556 RNA binding site [nucleotide binding]; other site 379731011557 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 379731011558 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 379731011559 IMP binding site; other site 379731011560 GDP-binding site [chemical binding]; other site 379731011561 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 379731011562 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 379731011563 dimer interface [polypeptide binding]; other site 379731011564 motif 1; other site 379731011565 active site 379731011566 motif 2; other site 379731011567 motif 3; other site 379731011568 FtsH protease regulator HflC; Provisional; Region: PRK11029 379731011569 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 379731011570 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 379731011571 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 379731011572 HflK protein; Region: hflK; TIGR01933 379731011573 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 379731011574 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 379731011575 HflX GTPase family; Region: HflX; cd01878 379731011576 G1 box; other site 379731011577 GTP/Mg2+ binding site [chemical binding]; other site 379731011578 Switch I region; other site 379731011579 G2 box; other site 379731011580 G3 box; other site 379731011581 Switch II region; other site 379731011582 G4 box; other site 379731011583 G5 box; other site 379731011584 bacterial Hfq-like; Region: Hfq; cd01716 379731011585 hexamer interface [polypeptide binding]; other site 379731011586 Sm1 motif; other site 379731011587 RNA binding site [nucleotide binding]; other site 379731011588 Sm2 motif; other site 379731011589 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 379731011590 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 379731011591 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 379731011592 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 379731011593 ATP binding site [chemical binding]; other site 379731011594 Mg2+ binding site [ion binding]; other site 379731011595 G-X-G motif; other site 379731011596 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 379731011597 ATP binding site [chemical binding]; other site 379731011598 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 379731011599 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 379731011600 AMIN domain; Region: AMIN; pfam11741 379731011601 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 379731011602 active site 379731011603 metal binding site [ion binding]; metal-binding site 379731011604 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 379731011605 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 379731011606 putative carbohydrate kinase; Provisional; Region: PRK10565 379731011607 Uncharacterized conserved protein [Function unknown]; Region: COG0062 379731011608 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 379731011609 epoxyqueuosine reductase; Region: TIGR00276 379731011610 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 379731011611 FtsH Extracellular; Region: FtsH_ext; pfam06480 379731011612 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 379731011613 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 379731011614 Walker A motif; other site 379731011615 ATP binding site [chemical binding]; other site 379731011616 Walker B motif; other site 379731011617 arginine finger; other site 379731011618 Peptidase family M41; Region: Peptidase_M41; pfam01434 379731011619 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 379731011620 aromatic acid decarboxylase; Validated; Region: PRK05920 379731011621 Flavoprotein; Region: Flavoprotein; pfam02441 379731011622 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 379731011623 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 379731011624 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 379731011625 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 379731011626 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 379731011627 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 379731011628 NAD(P) binding site [chemical binding]; other site 379731011629 catalytic residues [active] 379731011630 ethanolamine permease; Region: 2A0305; TIGR00908 379731011631 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 379731011632 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 379731011633 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 379731011634 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 379731011635 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 379731011636 putative active site [active] 379731011637 putative metal binding site [ion binding]; other site 379731011638 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 379731011639 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 379731011640 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 379731011641 homotrimer interaction site [polypeptide binding]; other site 379731011642 putative active site [active] 379731011643 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 379731011644 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 379731011645 dimer interface [polypeptide binding]; other site 379731011646 substrate binding site [chemical binding]; other site 379731011647 metal binding sites [ion binding]; metal-binding site 379731011648 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731011649 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731011650 metal binding site [ion binding]; metal-binding site 379731011651 active site 379731011652 I-site; other site 379731011653 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 379731011654 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 379731011655 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 379731011656 dimerization interface [polypeptide binding]; other site 379731011657 PAS domain S-box; Region: sensory_box; TIGR00229 379731011658 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 379731011659 putative active site [active] 379731011660 heme pocket [chemical binding]; other site 379731011661 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731011662 I-site; other site 379731011663 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 379731011664 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 379731011665 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 379731011666 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 379731011667 DNA binding residues [nucleotide binding] 379731011668 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 379731011669 tetrathionate reductase subunit A; Provisional; Region: PRK14991 379731011670 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 379731011671 molybdopterin cofactor binding site; other site 379731011672 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 379731011673 putative molybdopterin cofactor binding site [chemical binding]; other site 379731011674 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 379731011675 putative molybdopterin cofactor binding site; other site 379731011676 tetrathionate reductase subunit C; Provisional; Region: PRK14992 379731011677 tetrathionate reductase subunit B; Provisional; Region: PRK14993 379731011678 4Fe-4S binding domain; Region: Fer4; pfam00037 379731011679 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 379731011680 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 379731011681 catalytic residues [active] 379731011682 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 379731011683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731011684 catalytic residue [active] 379731011685 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 379731011686 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 379731011687 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 379731011688 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 379731011689 IucA / IucC family; Region: IucA_IucC; pfam04183 379731011690 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 379731011691 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 379731011692 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 379731011693 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 379731011694 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 379731011695 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 379731011696 substrate binding pocket [chemical binding]; other site 379731011697 chain length determination region; other site 379731011698 substrate-Mg2+ binding site; other site 379731011699 catalytic residues [active] 379731011700 aspartate-rich region 1; other site 379731011701 active site lid residues [active] 379731011702 aspartate-rich region 2; other site 379731011703 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 379731011704 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 379731011705 TPP-binding site; other site 379731011706 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 379731011707 PYR/PP interface [polypeptide binding]; other site 379731011708 dimer interface [polypeptide binding]; other site 379731011709 TPP binding site [chemical binding]; other site 379731011710 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 379731011711 Uncharacterized conserved protein [Function unknown]; Region: COG1432 379731011712 LabA_like proteins; Region: LabA; cd10911 379731011713 putative metal binding site [ion binding]; other site 379731011714 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 379731011715 short chain dehydrogenase; Provisional; Region: PRK06181 379731011716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731011717 NAD(P) binding site [chemical binding]; other site 379731011718 active site 379731011719 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 379731011720 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 379731011721 substrate binding pocket [chemical binding]; other site 379731011722 membrane-bound complex binding site; other site 379731011723 hinge residues; other site 379731011724 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 379731011725 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 379731011726 ATP binding site [chemical binding]; other site 379731011727 putative Mg++ binding site [ion binding]; other site 379731011728 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 379731011729 nucleotide binding region [chemical binding]; other site 379731011730 ATP-binding site [chemical binding]; other site 379731011731 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 379731011732 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 379731011733 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 379731011734 Cation efflux family; Region: Cation_efflux; cl00316 379731011735 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 379731011736 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 379731011737 putative DNA binding site [nucleotide binding]; other site 379731011738 putative Zn2+ binding site [ion binding]; other site 379731011739 AsnC family; Region: AsnC_trans_reg; pfam01037 379731011740 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 379731011741 heme-binding site [chemical binding]; other site 379731011742 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 379731011743 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 379731011744 pseudouridine synthase; Region: TIGR00093 379731011745 active site 379731011746 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 379731011747 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 379731011748 putative ligand binding site [chemical binding]; other site 379731011749 HEAT repeats; Region: HEAT_2; pfam13646 379731011750 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 379731011751 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 379731011752 TM-ABC transporter signature motif; other site 379731011753 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 379731011754 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 379731011755 TM-ABC transporter signature motif; other site 379731011756 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 379731011757 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 379731011758 Walker A/P-loop; other site 379731011759 ATP binding site [chemical binding]; other site 379731011760 Q-loop/lid; other site 379731011761 ABC transporter signature motif; other site 379731011762 Walker B; other site 379731011763 D-loop; other site 379731011764 H-loop/switch region; other site 379731011765 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 379731011766 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 379731011767 Walker A/P-loop; other site 379731011768 ATP binding site [chemical binding]; other site 379731011769 Q-loop/lid; other site 379731011770 ABC transporter signature motif; other site 379731011771 Walker B; other site 379731011772 D-loop; other site 379731011773 H-loop/switch region; other site 379731011774 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 379731011775 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 379731011776 magnesium-transporting ATPase; Provisional; Region: PRK15122 379731011777 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 379731011778 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 379731011779 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 379731011780 motif II; other site 379731011781 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 379731011782 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 379731011783 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 379731011784 alpha-gamma subunit interface [polypeptide binding]; other site 379731011785 beta-gamma subunit interface [polypeptide binding]; other site 379731011786 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 379731011787 gamma-beta subunit interface [polypeptide binding]; other site 379731011788 alpha-beta subunit interface [polypeptide binding]; other site 379731011789 urease subunit alpha; Reviewed; Region: ureC; PRK13207 379731011790 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 379731011791 subunit interactions [polypeptide binding]; other site 379731011792 active site 379731011793 flap region; other site 379731011794 GAF domain; Region: GAF; pfam01590 379731011795 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 379731011796 dimer interface [polypeptide binding]; other site 379731011797 phosphorylation site [posttranslational modification] 379731011798 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 379731011799 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 379731011800 ATP binding site [chemical binding]; other site 379731011801 Mg2+ binding site [ion binding]; other site 379731011802 G-X-G motif; other site 379731011803 hypothetical protein; Provisional; Region: PRK11019 379731011804 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 379731011805 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 379731011806 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 379731011807 tetramer interface [polypeptide binding]; other site 379731011808 active site 379731011809 Mg2+/Mn2+ binding site [ion binding]; other site 379731011810 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 379731011811 EamA-like transporter family; Region: EamA; pfam00892 379731011812 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 379731011813 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 379731011814 dimer interface [polypeptide binding]; other site 379731011815 catalytic residues [active] 379731011816 UreF; Region: UreF; pfam01730 379731011817 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 379731011818 G1 box; other site 379731011819 GTP/Mg2+ binding site [chemical binding]; other site 379731011820 G2 box; other site 379731011821 Switch I region; other site 379731011822 G3 box; other site 379731011823 Switch II region; other site 379731011824 G4 box; other site 379731011825 G5 box; other site 379731011826 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 379731011827 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 379731011828 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 379731011829 Trp docking motif [polypeptide binding]; other site 379731011830 putative active site [active] 379731011831 AMP nucleosidase; Provisional; Region: PRK08292 379731011832 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 379731011833 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 379731011834 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 379731011835 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 379731011836 DNA-binding site [nucleotide binding]; DNA binding site 379731011837 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 379731011838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731011839 homodimer interface [polypeptide binding]; other site 379731011840 catalytic residue [active] 379731011841 hypothetical protein; Provisional; Region: PRK06110 379731011842 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 379731011843 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 379731011844 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 379731011845 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 379731011846 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 379731011847 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 379731011848 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 379731011849 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 379731011850 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 379731011851 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 379731011852 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 379731011853 Ion transport protein; Region: Ion_trans; pfam00520 379731011854 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 379731011855 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 379731011856 active site 379731011857 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 379731011858 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 379731011859 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731011860 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 379731011861 dimer interface [polypeptide binding]; other site 379731011862 phosphorylation site [posttranslational modification] 379731011863 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 379731011864 ATP binding site [chemical binding]; other site 379731011865 Mg2+ binding site [ion binding]; other site 379731011866 G-X-G motif; other site 379731011867 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 379731011868 dimer interface [polypeptide binding]; other site 379731011869 substrate binding site [chemical binding]; other site 379731011870 ATP binding site [chemical binding]; other site 379731011871 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 379731011872 thiamine phosphate binding site [chemical binding]; other site 379731011873 active site 379731011874 pyrophosphate binding site [ion binding]; other site 379731011875 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 379731011876 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 379731011877 inhibitor-cofactor binding pocket; inhibition site 379731011878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731011879 catalytic residue [active] 379731011880 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 379731011881 Sel1-like repeats; Region: SEL1; smart00671 379731011882 Sel1-like repeats; Region: SEL1; smart00671 379731011883 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 379731011884 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 379731011885 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 379731011886 FeS/SAM binding site; other site 379731011887 TRAM domain; Region: TRAM; pfam01938 379731011888 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 379731011889 PhoH-like protein; Region: PhoH; pfam02562 379731011890 metal-binding heat shock protein; Provisional; Region: PRK00016 379731011891 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 379731011892 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 379731011893 Transporter associated domain; Region: CorC_HlyC; smart01091 379731011894 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 379731011895 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 379731011896 putative active site [active] 379731011897 catalytic triad [active] 379731011898 putative dimer interface [polypeptide binding]; other site 379731011899 Uncharacterized conserved protein [Function unknown]; Region: COG1434 379731011900 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 379731011901 putative active site [active] 379731011902 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 379731011903 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 379731011904 HIGH motif; other site 379731011905 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 379731011906 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 379731011907 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 379731011908 active site 379731011909 KMSKS motif; other site 379731011910 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 379731011911 tRNA binding surface [nucleotide binding]; other site 379731011912 Lipopolysaccharide-assembly; Region: LptE; cl01125 379731011913 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 379731011914 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 379731011915 Domain of unknown function; Region: DUF331; cl01149 379731011916 Transglycosylase SLT domain; Region: SLT_2; pfam13406 379731011917 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 379731011918 N-acetyl-D-glucosamine binding site [chemical binding]; other site 379731011919 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 379731011920 lipoyl synthase; Provisional; Region: PRK05481 379731011921 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 379731011922 FeS/SAM binding site; other site 379731011923 lipoate-protein ligase B; Provisional; Region: PRK14342 379731011924 hypothetical protein; Provisional; Region: PRK00341 379731011925 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 379731011926 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 379731011927 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 379731011928 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 379731011929 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 379731011930 Sporulation related domain; Region: SPOR; pfam05036 379731011931 Transglycosylase SLT domain; Region: SLT_2; pfam13406 379731011932 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 379731011933 N-acetyl-D-glucosamine binding site [chemical binding]; other site 379731011934 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 379731011935 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 379731011936 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 379731011937 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 379731011938 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 379731011939 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 379731011940 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 379731011941 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 379731011942 active site 379731011943 (T/H)XGH motif; other site 379731011944 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 379731011945 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 379731011946 putative catalytic cysteine [active] 379731011947 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 379731011948 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 379731011949 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 379731011950 active site 379731011951 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 379731011952 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 379731011953 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 379731011954 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 379731011955 putative active site [active] 379731011956 putative catalytic site [active] 379731011957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 379731011958 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 379731011959 MORN repeat; Region: MORN; cl14787 379731011960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 379731011961 Peptidase C13 family; Region: Peptidase_C13; cl02159 379731011962 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 379731011963 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 379731011964 NAD binding site [chemical binding]; other site 379731011965 active site 379731011966 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 379731011967 catalytic site [active] 379731011968 putative active site [active] 379731011969 putative substrate binding site [chemical binding]; other site 379731011970 dimer interface [polypeptide binding]; other site 379731011971 Methyltransferase domain; Region: Methyltransf_18; pfam12847 379731011972 S-adenosylmethionine binding site [chemical binding]; other site 379731011973 GTPase RsgA; Reviewed; Region: PRK12288 379731011974 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 379731011975 RNA binding site [nucleotide binding]; other site 379731011976 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 379731011977 GTPase/Zn-binding domain interface [polypeptide binding]; other site 379731011978 GTP/Mg2+ binding site [chemical binding]; other site 379731011979 G4 box; other site 379731011980 G5 box; other site 379731011981 G1 box; other site 379731011982 Switch I region; other site 379731011983 G2 box; other site 379731011984 G3 box; other site 379731011985 Switch II region; other site 379731011986 flagellar motor protein MotB; Validated; Region: motB; PRK09041 379731011987 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 379731011988 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 379731011989 ligand binding site [chemical binding]; other site 379731011990 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 379731011991 flagellar motor protein MotA; Validated; Region: PRK09110 379731011992 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 379731011993 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 379731011994 active site residue [active] 379731011995 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 379731011996 active site residue [active] 379731011997 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 379731011998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 379731011999 dimerization interface [polypeptide binding]; other site 379731012000 PAS domain; Region: PAS_8; pfam13188 379731012001 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 379731012002 putative active site [active] 379731012003 heme pocket [chemical binding]; other site 379731012004 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731012005 metal binding site [ion binding]; metal-binding site 379731012006 active site 379731012007 I-site; other site 379731012008 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 379731012009 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 379731012010 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 379731012011 tetramer interface [polypeptide binding]; other site 379731012012 catalytic Zn binding site [ion binding]; other site 379731012013 NADP binding site [chemical binding]; other site 379731012014 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 379731012015 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 379731012016 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 379731012017 phosphoserine phosphatase SerB; Region: serB; TIGR00338 379731012018 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 379731012019 motif II; other site 379731012020 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 379731012021 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 379731012022 Protein of unknown function (DUF330); Region: DUF330; pfam03886 379731012023 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 379731012024 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 379731012025 CAP-like domain; other site 379731012026 active site 379731012027 primary dimer interface [polypeptide binding]; other site 379731012028 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 379731012029 catalytic motif [active] 379731012030 Catalytic residue [active] 379731012031 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 379731012032 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 379731012033 ATP binding site [chemical binding]; other site 379731012034 Mg2+ binding site [ion binding]; other site 379731012035 G-X-G motif; other site 379731012036 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 379731012037 anchoring element; other site 379731012038 dimer interface [polypeptide binding]; other site 379731012039 ATP binding site [chemical binding]; other site 379731012040 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 379731012041 active site 379731012042 metal binding site [ion binding]; metal-binding site 379731012043 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 379731012044 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 379731012045 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 379731012046 active site 379731012047 metal binding site [ion binding]; metal-binding site 379731012048 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 379731012049 hexamer interface [polypeptide binding]; other site 379731012050 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 379731012051 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 379731012052 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 379731012053 dimer interface [polypeptide binding]; other site 379731012054 ADP-ribose binding site [chemical binding]; other site 379731012055 active site 379731012056 nudix motif; other site 379731012057 metal binding site [ion binding]; metal-binding site 379731012058 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 379731012059 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 379731012060 ThiC-associated domain; Region: ThiC-associated; pfam13667 379731012061 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 379731012062 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 379731012063 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 379731012064 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 379731012065 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 379731012066 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 379731012067 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 379731012068 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 379731012069 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 379731012070 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 379731012071 active site 379731012072 catalytic tetrad [active] 379731012073 HipA-like N-terminal domain; Region: HipA_N; pfam07805 379731012074 HipA-like C-terminal domain; Region: HipA_C; pfam07804 379731012075 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 379731012076 non-specific DNA binding site [nucleotide binding]; other site 379731012077 salt bridge; other site 379731012078 sequence-specific DNA binding site [nucleotide binding]; other site 379731012079 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 379731012080 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 379731012081 putative ribose interaction site [chemical binding]; other site 379731012082 putative ADP binding site [chemical binding]; other site 379731012083 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 379731012084 active site 379731012085 nucleotide binding site [chemical binding]; other site 379731012086 HIGH motif; other site 379731012087 KMSKS motif; other site 379731012088 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 379731012089 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 379731012090 Mig-14; Region: Mig-14; pfam07395 379731012091 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 379731012092 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 379731012093 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 379731012094 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 379731012095 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 379731012096 Walker A/P-loop; other site 379731012097 ATP binding site [chemical binding]; other site 379731012098 Q-loop/lid; other site 379731012099 ABC transporter signature motif; other site 379731012100 Walker B; other site 379731012101 D-loop; other site 379731012102 H-loop/switch region; other site 379731012103 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 379731012104 active site 379731012105 ATP binding site [chemical binding]; other site 379731012106 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 379731012107 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 379731012108 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 379731012109 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 379731012110 pseudaminic acid synthase; Region: PseI; TIGR03586 379731012111 NeuB family; Region: NeuB; pfam03102 379731012112 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 379731012113 NeuB binding interface [polypeptide binding]; other site 379731012114 putative substrate binding site [chemical binding]; other site 379731012115 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 379731012116 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 379731012117 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 379731012118 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 379731012119 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 379731012120 ligand binding site; other site 379731012121 tetramer interface; other site 379731012122 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 379731012123 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 379731012124 inhibitor-cofactor binding pocket; inhibition site 379731012125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731012126 catalytic residue [active] 379731012127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731012128 NAD(P) binding site [chemical binding]; other site 379731012129 active site 379731012130 Ribosome-binding factor A; Region: RBFA; cl00542 379731012131 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 379731012132 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 379731012133 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 379731012134 active site 379731012135 ATP binding site [chemical binding]; other site 379731012136 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 379731012137 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 379731012138 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 379731012139 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 379731012140 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 379731012141 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 379731012142 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 379731012143 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 379731012144 putative active site [active] 379731012145 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 379731012146 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 379731012147 putative active site [active] 379731012148 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 379731012149 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 379731012150 homodimer interface [polypeptide binding]; other site 379731012151 substrate-cofactor binding pocket; other site 379731012152 catalytic residue [active] 379731012153 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 379731012154 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 379731012155 metal binding triad; other site 379731012156 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 379731012157 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 379731012158 metal binding triad; other site 379731012159 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 379731012160 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 379731012161 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 379731012162 dimer interface [polypeptide binding]; other site 379731012163 TPP-binding site [chemical binding]; other site 379731012164 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 379731012165 E3 interaction surface; other site 379731012166 lipoyl attachment site [posttranslational modification]; other site 379731012167 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 379731012168 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 379731012169 E3 interaction surface; other site 379731012170 lipoyl attachment site [posttranslational modification]; other site 379731012171 e3 binding domain; Region: E3_binding; pfam02817 379731012172 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 379731012173 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 379731012174 GAF domain; Region: GAF; pfam01590 379731012175 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 379731012176 PAS domain; Region: PAS_9; pfam13426 379731012177 putative active site [active] 379731012178 heme pocket [chemical binding]; other site 379731012179 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731012180 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731012181 metal binding site [ion binding]; metal-binding site 379731012182 active site 379731012183 I-site; other site 379731012184 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 379731012185 methionine sulfoxide reductase A; Provisional; Region: PRK00058 379731012186 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 379731012187 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 379731012188 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 379731012189 active site 379731012190 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 379731012191 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731012192 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731012193 metal binding site [ion binding]; metal-binding site 379731012194 active site 379731012195 I-site; other site 379731012196 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 379731012197 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 379731012198 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 379731012199 active site 379731012200 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 379731012201 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 379731012202 AAA domain; Region: AAA_26; pfam13500 379731012203 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 379731012204 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 379731012205 S-adenosylmethionine binding site [chemical binding]; other site 379731012206 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 379731012207 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 379731012208 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 379731012209 substrate-cofactor binding pocket; other site 379731012210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731012211 catalytic residue [active] 379731012212 biotin synthase; Provisional; Region: PRK15108 379731012213 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 379731012214 FeS/SAM binding site; other site 379731012215 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 379731012216 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 379731012217 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 379731012218 active site 379731012219 serine/threonine protein kinase; Provisional; Region: PRK11768 379731012220 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 379731012221 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 379731012222 Nitronate monooxygenase; Region: NMO; pfam03060 379731012223 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 379731012224 FMN binding site [chemical binding]; other site 379731012225 substrate binding site [chemical binding]; other site 379731012226 putative catalytic residue [active] 379731012227 beta-carotene hydroxylase; Region: PLN02601 379731012228 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 379731012229 active site lid residues [active] 379731012230 substrate binding pocket [chemical binding]; other site 379731012231 catalytic residues [active] 379731012232 substrate-Mg2+ binding site; other site 379731012233 aspartate-rich region 1; other site 379731012234 aspartate-rich region 2; other site 379731012235 phytoene desaturase; Region: crtI_fam; TIGR02734 379731012236 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 379731012237 lycopene cyclase family protein; Region: carotene-cycl; TIGR01790 379731012238 lycopene cyclase; Region: lycopene_cycl; TIGR01789 379731012239 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 379731012240 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 379731012241 active site 379731012242 TDP-binding site; other site 379731012243 acceptor substrate-binding pocket; other site 379731012244 homodimer interface [polypeptide binding]; other site 379731012245 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 379731012246 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 379731012247 homotetramer interface [polypeptide binding]; other site 379731012248 FMN binding site [chemical binding]; other site 379731012249 homodimer contacts [polypeptide binding]; other site 379731012250 putative active site [active] 379731012251 putative substrate binding site [chemical binding]; other site 379731012252 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 379731012253 substrate binding pocket [chemical binding]; other site 379731012254 substrate-Mg2+ binding site; other site 379731012255 aspartate-rich region 1; other site 379731012256 aspartate-rich region 2; other site 379731012257 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 379731012258 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 379731012259 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 379731012260 active site 379731012261 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 379731012262 potassium/proton antiporter; Reviewed; Region: PRK05326 379731012263 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 379731012264 TrkA-C domain; Region: TrkA_C; pfam02080 379731012265 Transporter associated domain; Region: CorC_HlyC; smart01091 379731012266 hypothetical protein; Provisional; Region: PRK11281 379731012267 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 379731012268 Mechanosensitive ion channel; Region: MS_channel; pfam00924 379731012269 Uncharacterized conserved protein [Function unknown]; Region: COG0397 379731012270 hypothetical protein; Validated; Region: PRK00029 379731012271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731012272 active site 379731012273 phosphorylation site [posttranslational modification] 379731012274 intermolecular recognition site; other site 379731012275 dimerization interface [polypeptide binding]; other site 379731012276 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731012277 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 379731012278 dimer interface [polypeptide binding]; other site 379731012279 phosphorylation site [posttranslational modification] 379731012280 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 379731012281 ATP binding site [chemical binding]; other site 379731012282 Mg2+ binding site [ion binding]; other site 379731012283 G-X-G motif; other site 379731012284 CheB methylesterase; Region: CheB_methylest; pfam01339 379731012285 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 379731012286 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 379731012287 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 379731012288 CHASE3 domain; Region: CHASE3; pfam05227 379731012289 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 379731012290 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 379731012291 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731012292 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 379731012293 dimer interface [polypeptide binding]; other site 379731012294 phosphorylation site [posttranslational modification] 379731012295 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 379731012296 ATP binding site [chemical binding]; other site 379731012297 Mg2+ binding site [ion binding]; other site 379731012298 G-X-G motif; other site 379731012299 Response regulator receiver domain; Region: Response_reg; pfam00072 379731012300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731012301 active site 379731012302 phosphorylation site [posttranslational modification] 379731012303 intermolecular recognition site; other site 379731012304 dimerization interface [polypeptide binding]; other site 379731012305 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731012306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731012307 active site 379731012308 phosphorylation site [posttranslational modification] 379731012309 intermolecular recognition site; other site 379731012310 Response regulator receiver domain; Region: Response_reg; pfam00072 379731012311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731012312 active site 379731012313 phosphorylation site [posttranslational modification] 379731012314 intermolecular recognition site; other site 379731012315 dimerization interface [polypeptide binding]; other site 379731012316 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 379731012317 short chain dehydrogenase; Provisional; Region: PRK07109 379731012318 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 379731012319 putative NAD(P) binding site [chemical binding]; other site 379731012320 active site 379731012321 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 379731012322 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 379731012323 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 379731012324 dimer interface [polypeptide binding]; other site 379731012325 active site residues [active] 379731012326 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 379731012327 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 379731012328 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 379731012329 Water Stress and Hypersensitive response; Region: WHy; smart00769 379731012330 Trehalase; Region: Trehalase; cl17346 379731012331 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 379731012332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 379731012333 NAD(P) binding site [chemical binding]; other site 379731012334 active site 379731012335 Predicted permeases [General function prediction only]; Region: RarD; COG2962 379731012336 EamA-like transporter family; Region: EamA; pfam00892 379731012337 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 379731012338 ACT domain; Region: ACT_6; pfam13740 379731012339 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 379731012340 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 379731012341 active site 379731012342 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 379731012343 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 379731012344 ligand binding site [chemical binding]; other site 379731012345 flexible hinge region; other site 379731012346 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 379731012347 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 379731012348 metal binding triad; other site 379731012349 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 379731012350 active site 379731012351 catalytic site [active] 379731012352 substrate binding site [chemical binding]; other site 379731012353 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 379731012354 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 379731012355 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 379731012356 Na binding site [ion binding]; other site 379731012357 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 379731012358 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 379731012359 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 379731012360 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 379731012361 ATP binding site [chemical binding]; other site 379731012362 Mg++ binding site [ion binding]; other site 379731012363 motif III; other site 379731012364 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 379731012365 nucleotide binding region [chemical binding]; other site 379731012366 ATP-binding site [chemical binding]; other site 379731012367 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 379731012368 putative RNA binding site [nucleotide binding]; other site 379731012369 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 379731012370 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 379731012371 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 379731012372 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 379731012373 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 379731012374 substrate binding pocket [chemical binding]; other site 379731012375 membrane-bound complex binding site; other site 379731012376 hinge residues; other site 379731012377 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 379731012378 HI0933-like protein; Region: HI0933_like; pfam03486 379731012379 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 379731012380 heme-binding site [chemical binding]; other site 379731012381 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 379731012382 PAS fold; Region: PAS_3; pfam08447 379731012383 putative active site [active] 379731012384 heme pocket [chemical binding]; other site 379731012385 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731012386 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731012387 metal binding site [ion binding]; metal-binding site 379731012388 active site 379731012389 I-site; other site 379731012390 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 379731012391 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 379731012392 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 379731012393 Methyltransferase domain; Region: Methyltransf_23; pfam13489 379731012394 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 379731012395 S-adenosylmethionine binding site [chemical binding]; other site 379731012396 Response regulator receiver domain; Region: Response_reg; pfam00072 379731012397 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731012398 active site 379731012399 phosphorylation site [posttranslational modification] 379731012400 intermolecular recognition site; other site 379731012401 dimerization interface [polypeptide binding]; other site 379731012402 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 379731012403 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 379731012404 intersubunit interface [polypeptide binding]; other site 379731012405 active site 379731012406 zinc binding site [ion binding]; other site 379731012407 Na+ binding site [ion binding]; other site 379731012408 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 379731012409 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 379731012410 Phosphoglycerate kinase; Region: PGK; pfam00162 379731012411 substrate binding site [chemical binding]; other site 379731012412 hinge regions; other site 379731012413 ADP binding site [chemical binding]; other site 379731012414 catalytic site [active] 379731012415 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 379731012416 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 379731012417 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 379731012418 transketolase; Reviewed; Region: PRK12753 379731012419 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 379731012420 TPP-binding site [chemical binding]; other site 379731012421 dimer interface [polypeptide binding]; other site 379731012422 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 379731012423 PYR/PP interface [polypeptide binding]; other site 379731012424 dimer interface [polypeptide binding]; other site 379731012425 TPP binding site [chemical binding]; other site 379731012426 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 379731012427 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 379731012428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731012429 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 379731012430 dimerization interface [polypeptide binding]; other site 379731012431 substrate binding pocket [chemical binding]; other site 379731012432 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 379731012433 substrate binding pocket [chemical binding]; other site 379731012434 active site 379731012435 iron coordination sites [ion binding]; other site 379731012436 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 379731012437 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 379731012438 putative DNA binding site [nucleotide binding]; other site 379731012439 putative Zn2+ binding site [ion binding]; other site 379731012440 Methyltransferase domain; Region: Methyltransf_31; pfam13847 379731012441 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 379731012442 S-adenosylmethionine binding site [chemical binding]; other site 379731012443 S-adenosylmethionine synthetase; Validated; Region: PRK05250 379731012444 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 379731012445 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 379731012446 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 379731012447 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 379731012448 ABC-2 type transporter; Region: ABC2_membrane; cl17235 379731012449 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 379731012450 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 379731012451 Walker A/P-loop; other site 379731012452 ATP binding site [chemical binding]; other site 379731012453 Q-loop/lid; other site 379731012454 ABC transporter signature motif; other site 379731012455 Walker B; other site 379731012456 D-loop; other site 379731012457 H-loop/switch region; other site 379731012458 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 379731012459 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 379731012460 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 379731012461 FAD binding pocket [chemical binding]; other site 379731012462 FAD binding motif [chemical binding]; other site 379731012463 phosphate binding motif [ion binding]; other site 379731012464 beta-alpha-beta structure motif; other site 379731012465 NAD binding pocket [chemical binding]; other site 379731012466 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 379731012467 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; cl03295 379731012468 nucleotide binding pocket [chemical binding]; other site 379731012469 K-X-D-G motif; other site 379731012470 catalytic site [active] 379731012471 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 379731012472 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 379731012473 Cytochrome C' Region: Cytochrom_C_2; pfam01322 379731012474 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 379731012475 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 379731012476 homotetramer interface [polypeptide binding]; other site 379731012477 ligand binding site [chemical binding]; other site 379731012478 catalytic site [active] 379731012479 NAD binding site [chemical binding]; other site 379731012480 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 379731012481 FAD binding site [chemical binding]; other site 379731012482 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 379731012483 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 379731012484 ATP binding site [chemical binding]; other site 379731012485 Mg++ binding site [ion binding]; other site 379731012486 motif III; other site 379731012487 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 379731012488 nucleotide binding region [chemical binding]; other site 379731012489 ATP-binding site [chemical binding]; other site 379731012490 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 379731012491 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 379731012492 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 379731012493 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 379731012494 HlyD family secretion protein; Region: HlyD_3; pfam13437 379731012495 hypothetical protein; Provisional; Region: PRK03757 379731012496 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 379731012497 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 379731012498 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 379731012499 inhibitor-cofactor binding pocket; inhibition site 379731012500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731012501 catalytic residue [active] 379731012502 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 379731012503 RNA methyltransferase, RsmE family; Region: TIGR00046 379731012504 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 379731012505 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 379731012506 CheB methylesterase; Region: CheB_methylest; pfam01339 379731012507 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 379731012508 putative binding surface; other site 379731012509 active site 379731012510 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 379731012511 putative binding surface; other site 379731012512 active site 379731012513 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 379731012514 putative binding surface; other site 379731012515 active site 379731012516 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 379731012517 putative binding surface; other site 379731012518 active site 379731012519 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 379731012520 putative binding surface; other site 379731012521 active site 379731012522 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 379731012523 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 379731012524 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 379731012525 ATP binding site [chemical binding]; other site 379731012526 Mg2+ binding site [ion binding]; other site 379731012527 G-X-G motif; other site 379731012528 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 379731012529 Response regulator receiver domain; Region: Response_reg; pfam00072 379731012530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731012531 active site 379731012532 phosphorylation site [posttranslational modification] 379731012533 intermolecular recognition site; other site 379731012534 dimerization interface [polypeptide binding]; other site 379731012535 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 379731012536 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 379731012537 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 379731012538 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 379731012539 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731012540 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731012541 dimer interface [polypeptide binding]; other site 379731012542 putative CheW interface [polypeptide binding]; other site 379731012543 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 379731012544 putative CheA interaction surface; other site 379731012545 Response regulator receiver domain; Region: Response_reg; pfam00072 379731012546 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731012547 active site 379731012548 phosphorylation site [posttranslational modification] 379731012549 intermolecular recognition site; other site 379731012550 dimerization interface [polypeptide binding]; other site 379731012551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731012552 Response regulator receiver domain; Region: Response_reg; pfam00072 379731012553 active site 379731012554 phosphorylation site [posttranslational modification] 379731012555 intermolecular recognition site; other site 379731012556 dimerization interface [polypeptide binding]; other site 379731012557 glutathione synthetase; Provisional; Region: PRK05246 379731012558 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 379731012559 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 379731012560 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 379731012561 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 379731012562 hypothetical protein; Validated; Region: PRK00228 379731012563 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 379731012564 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 379731012565 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 379731012566 active site 379731012567 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 379731012568 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 379731012569 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 379731012570 dihydroorotase; Validated; Region: pyrC; PRK09357 379731012571 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 379731012572 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 379731012573 active site 379731012574 TM2 domain; Region: TM2; cl00984 379731012575 TM2 domain; Region: TM2; cl00984 379731012576 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 379731012577 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 379731012578 FeS/SAM binding site; other site 379731012579 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 379731012580 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 379731012581 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 379731012582 Walker A motif; other site 379731012583 ATP binding site [chemical binding]; other site 379731012584 Walker B motif; other site 379731012585 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 379731012586 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 379731012587 Walker A motif; other site 379731012588 ATP binding site [chemical binding]; other site 379731012589 Walker B motif; other site 379731012590 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 379731012591 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 379731012592 catalytic residue [active] 379731012593 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 379731012594 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 379731012595 YGGT family; Region: YGGT; pfam02325 379731012596 YGGT family; Region: YGGT; pfam02325 379731012597 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 379731012598 Dynamin family; Region: Dynamin_N; pfam00350 379731012599 G1 box; other site 379731012600 GTP/Mg2+ binding site [chemical binding]; other site 379731012601 G2 box; other site 379731012602 Switch I region; other site 379731012603 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 379731012604 G3 box; other site 379731012605 Switch II region; other site 379731012606 GTP/Mg2+ binding site [chemical binding]; other site 379731012607 G4 box; other site 379731012608 G5 box; other site 379731012609 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 379731012610 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 379731012611 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 379731012612 S-adenosylmethionine binding site [chemical binding]; other site 379731012613 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 379731012614 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 379731012615 active site 379731012616 dimerization interface [polypeptide binding]; other site 379731012617 HemN family oxidoreductase; Provisional; Region: PRK05660 379731012618 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 379731012619 FeS/SAM binding site; other site 379731012620 HemN C-terminal domain; Region: HemN_C; pfam06969 379731012621 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 379731012622 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 379731012623 arginine deiminase; Provisional; Region: PRK01388 379731012624 ornithine carbamoyltransferase; Validated; Region: PRK02102 379731012625 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 379731012626 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 379731012627 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 379731012628 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 379731012629 putative substrate binding site [chemical binding]; other site 379731012630 nucleotide binding site [chemical binding]; other site 379731012631 nucleotide binding site [chemical binding]; other site 379731012632 homodimer interface [polypeptide binding]; other site 379731012633 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 379731012634 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 379731012635 S-adenosylmethionine binding site [chemical binding]; other site 379731012636 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 379731012637 ThiS interaction site; other site 379731012638 putative active site [active] 379731012639 tetramer interface [polypeptide binding]; other site 379731012640 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 379731012641 thiS-thiF/thiG interaction site; other site 379731012642 Protein of unknown function (DUF423); Region: DUF423; pfam04241 379731012643 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 379731012644 Transglycosylase; Region: Transgly; cl17702 379731012645 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 379731012646 PAS domain; Region: PAS_9; pfam13426 379731012647 putative active site [active] 379731012648 heme pocket [chemical binding]; other site 379731012649 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731012650 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731012651 metal binding site [ion binding]; metal-binding site 379731012652 active site 379731012653 I-site; other site 379731012654 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 379731012655 CHASE domain; Region: CHASE; pfam03924 379731012656 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 379731012657 PAS fold; Region: PAS_3; pfam08447 379731012658 putative active site [active] 379731012659 heme pocket [chemical binding]; other site 379731012660 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 379731012661 dimer interface [polypeptide binding]; other site 379731012662 phosphorylation site [posttranslational modification] 379731012663 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 379731012664 ATP binding site [chemical binding]; other site 379731012665 Mg2+ binding site [ion binding]; other site 379731012666 G-X-G motif; other site 379731012667 Response regulator receiver domain; Region: Response_reg; pfam00072 379731012668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731012669 active site 379731012670 phosphorylation site [posttranslational modification] 379731012671 intermolecular recognition site; other site 379731012672 dimerization interface [polypeptide binding]; other site 379731012673 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 379731012674 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 379731012675 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 379731012676 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 379731012677 DNA binding residues [nucleotide binding] 379731012678 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 379731012679 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 379731012680 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 379731012681 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731012682 Walker A/P-loop; other site 379731012683 ATP binding site [chemical binding]; other site 379731012684 Q-loop/lid; other site 379731012685 ABC transporter signature motif; other site 379731012686 Walker B; other site 379731012687 D-loop; other site 379731012688 H-loop/switch region; other site 379731012689 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 379731012690 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 379731012691 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 379731012692 P loop; other site 379731012693 GTP binding site [chemical binding]; other site 379731012694 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 379731012695 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 379731012696 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 379731012697 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 379731012698 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 379731012699 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 379731012700 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 379731012701 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 379731012702 S-adenosylmethionine binding site [chemical binding]; other site 379731012703 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 379731012704 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 379731012705 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 379731012706 Bacterial transcriptional repressor; Region: TetR; pfam13972 379731012707 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 379731012708 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 379731012709 NAD(P) binding site [chemical binding]; other site 379731012710 catalytic residues [active] 379731012711 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 379731012712 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 379731012713 dehydrogenase, Rv0697 family; Region: Rv0697; TIGR03970 379731012714 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 379731012715 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 379731012716 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 379731012717 active site 379731012718 (T/H)XGH motif; other site 379731012719 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 379731012720 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 379731012721 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 379731012722 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 379731012723 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 379731012724 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 379731012725 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 379731012726 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 379731012727 DNA binding site [nucleotide binding] 379731012728 catalytic residue [active] 379731012729 H2TH interface [polypeptide binding]; other site 379731012730 putative catalytic residues [active] 379731012731 turnover-facilitating residue; other site 379731012732 intercalation triad [nucleotide binding]; other site 379731012733 8OG recognition residue [nucleotide binding]; other site 379731012734 putative reading head residues; other site 379731012735 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 379731012736 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 379731012737 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 379731012738 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 379731012739 intracellular protease, PfpI family; Region: PfpI; TIGR01382 379731012740 proposed catalytic triad [active] 379731012741 conserved cys residue [active] 379731012742 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 379731012743 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 379731012744 putative RNA binding site [nucleotide binding]; other site 379731012745 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 379731012746 S-adenosylmethionine binding site [chemical binding]; other site 379731012747 chlorophyllase; Region: PLN00021 379731012748 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 379731012749 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 379731012750 Predicted dehydrogenase [General function prediction only]; Region: COG0579 379731012751 hydroxyglutarate oxidase; Provisional; Region: PRK11728 379731012752 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 379731012753 active site 379731012754 metal binding site [ion binding]; metal-binding site 379731012755 homotetramer interface [polypeptide binding]; other site 379731012756 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 379731012757 Uncharacterized conserved protein [Function unknown]; Region: COG1284 379731012758 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 379731012759 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 379731012760 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 379731012761 folate binding site [chemical binding]; other site 379731012762 NADP+ binding site [chemical binding]; other site 379731012763 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 379731012764 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 379731012765 putative active site [active] 379731012766 catalytic site [active] 379731012767 putative metal binding site [ion binding]; other site 379731012768 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 379731012769 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 379731012770 G1 box; other site 379731012771 GTP/Mg2+ binding site [chemical binding]; other site 379731012772 G2 box; other site 379731012773 Switch I region; other site 379731012774 G3 box; other site 379731012775 Switch II region; other site 379731012776 G4 box; other site 379731012777 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 379731012778 EamA-like transporter family; Region: EamA; pfam00892 379731012779 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 379731012780 EamA-like transporter family; Region: EamA; pfam00892 379731012781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731012782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731012783 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 379731012784 putative effector binding pocket; other site 379731012785 dimerization interface [polypeptide binding]; other site 379731012786 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 379731012787 PhoU domain; Region: PhoU; pfam01895 379731012788 PhoU domain; Region: PhoU; pfam01895 379731012789 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 379731012790 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 379731012791 Walker A/P-loop; other site 379731012792 ATP binding site [chemical binding]; other site 379731012793 Q-loop/lid; other site 379731012794 ABC transporter signature motif; other site 379731012795 Walker B; other site 379731012796 D-loop; other site 379731012797 H-loop/switch region; other site 379731012798 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 379731012799 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 379731012800 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731012801 dimer interface [polypeptide binding]; other site 379731012802 conserved gate region; other site 379731012803 putative PBP binding loops; other site 379731012804 ABC-ATPase subunit interface; other site 379731012805 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 379731012806 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731012807 dimer interface [polypeptide binding]; other site 379731012808 conserved gate region; other site 379731012809 putative PBP binding loops; other site 379731012810 ABC-ATPase subunit interface; other site 379731012811 PBP superfamily domain; Region: PBP_like_2; cl17296 379731012812 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 379731012813 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 379731012814 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731012815 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731012816 metal binding site [ion binding]; metal-binding site 379731012817 active site 379731012818 I-site; other site 379731012819 Predicted permeases [General function prediction only]; Region: COG0679 379731012820 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 379731012821 AAA domain; Region: AAA_30; pfam13604 379731012822 Family description; Region: UvrD_C_2; pfam13538 379731012823 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 379731012824 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 379731012825 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 379731012826 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 379731012827 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 379731012828 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 379731012829 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 379731012830 PhoU domain; Region: PhoU; pfam01895 379731012831 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 379731012832 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 379731012833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 379731012834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 379731012835 outer membrane porin, OprD family; Region: OprD; pfam03573 379731012836 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 379731012837 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731012838 active site 379731012839 phosphorylation site [posttranslational modification] 379731012840 intermolecular recognition site; other site 379731012841 dimerization interface [polypeptide binding]; other site 379731012842 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 379731012843 DNA binding site [nucleotide binding] 379731012844 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 379731012845 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731012846 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 379731012847 dimerization interface [polypeptide binding]; other site 379731012848 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 379731012849 dimer interface [polypeptide binding]; other site 379731012850 phosphorylation site [posttranslational modification] 379731012851 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 379731012852 ATP binding site [chemical binding]; other site 379731012853 Mg2+ binding site [ion binding]; other site 379731012854 G-X-G motif; other site 379731012855 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 379731012856 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 379731012857 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731012858 metal binding site [ion binding]; metal-binding site 379731012859 active site 379731012860 I-site; other site 379731012861 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 379731012862 PAS domain; Region: PAS_9; pfam13426 379731012863 putative active site [active] 379731012864 heme pocket [chemical binding]; other site 379731012865 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 379731012866 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731012867 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731012868 dimer interface [polypeptide binding]; other site 379731012869 putative CheW interface [polypeptide binding]; other site 379731012870 PAS domain; Region: PAS_9; pfam13426 379731012871 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 379731012872 putative active site [active] 379731012873 heme pocket [chemical binding]; other site 379731012874 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731012875 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731012876 dimer interface [polypeptide binding]; other site 379731012877 putative CheW interface [polypeptide binding]; other site 379731012878 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 379731012879 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 379731012880 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 379731012881 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 379731012882 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 379731012883 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 379731012884 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 379731012885 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 379731012886 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731012887 active site 379731012888 phosphorylation site [posttranslational modification] 379731012889 intermolecular recognition site; other site 379731012890 dimerization interface [polypeptide binding]; other site 379731012891 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 379731012892 Walker A motif; other site 379731012893 ATP binding site [chemical binding]; other site 379731012894 Walker B motif; other site 379731012895 arginine finger; other site 379731012896 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 379731012897 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 379731012898 dimerization interface [polypeptide binding]; other site 379731012899 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 379731012900 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 379731012901 putative active site [active] 379731012902 heme pocket [chemical binding]; other site 379731012903 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 379731012904 dimer interface [polypeptide binding]; other site 379731012905 phosphorylation site [posttranslational modification] 379731012906 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 379731012907 ATP binding site [chemical binding]; other site 379731012908 Mg2+ binding site [ion binding]; other site 379731012909 G-X-G motif; other site 379731012910 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 379731012911 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 379731012912 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 379731012913 amidase catalytic site [active] 379731012914 Zn binding residues [ion binding]; other site 379731012915 substrate binding site [chemical binding]; other site 379731012916 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 379731012917 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 379731012918 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 379731012919 metal binding site [ion binding]; metal-binding site 379731012920 active site 379731012921 I-site; other site 379731012922 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 379731012923 putative catalytic site [active] 379731012924 putative phosphate binding site [ion binding]; other site 379731012925 putative metal binding site [ion binding]; other site 379731012926 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 379731012927 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 379731012928 catalytic residues [active] 379731012929 hinge region; other site 379731012930 alpha helical domain; other site 379731012931 Cytochrome c553 [Energy production and conversion]; Region: COG2863 379731012932 Cytochrome c; Region: Cytochrom_C; cl11414 379731012933 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 379731012934 G1 box; other site 379731012935 GTP/Mg2+ binding site [chemical binding]; other site 379731012936 Switch I region; other site 379731012937 G2 box; other site 379731012938 G3 box; other site 379731012939 Switch II region; other site 379731012940 G4 box; other site 379731012941 G5 box; other site 379731012942 glycine dehydrogenase; Provisional; Region: PRK12566 379731012943 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 379731012944 tetramer interface [polypeptide binding]; other site 379731012945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731012946 catalytic residue [active] 379731012947 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 379731012948 tetramer interface [polypeptide binding]; other site 379731012949 pyridoxal 5'-phosphate binding site [chemical binding]; other site 379731012950 catalytic residue [active] 379731012951 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 379731012952 lipoyl attachment site [posttranslational modification]; other site 379731012953 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 379731012954 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 379731012955 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 379731012956 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731012957 dimer interface [polypeptide binding]; other site 379731012958 conserved gate region; other site 379731012959 putative PBP binding loops; other site 379731012960 ABC-ATPase subunit interface; other site 379731012961 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 379731012962 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 379731012963 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 379731012964 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 379731012965 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 379731012966 active site 2 [active] 379731012967 active site 1 [active] 379731012968 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 379731012969 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 379731012970 proline aminopeptidase P II; Provisional; Region: PRK10879 379731012971 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 379731012972 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 379731012973 active site 379731012974 hypothetical protein; Reviewed; Region: PRK02166 379731012975 TIGR02449 family protein; Region: TIGR02449 379731012976 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 379731012977 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 379731012978 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 379731012979 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 379731012980 NAD(P) binding site [chemical binding]; other site 379731012981 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 379731012982 SecA binding site; other site 379731012983 Preprotein binding site; other site 379731012984 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 379731012985 GSH binding site [chemical binding]; other site 379731012986 catalytic residues [active] 379731012987 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 379731012988 active site residue [active] 379731012989 phosphoglyceromutase; Provisional; Region: PRK05434 379731012990 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 379731012991 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 379731012992 Peptidase family M23; Region: Peptidase_M23; pfam01551 379731012993 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 379731012994 C-terminal peptidase (prc); Region: prc; TIGR00225 379731012995 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 379731012996 protein binding site [polypeptide binding]; other site 379731012997 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 379731012998 Catalytic dyad [active] 379731012999 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 379731013000 NodB motif; other site 379731013001 putative active site [active] 379731013002 putative catalytic site [active] 379731013003 Zn binding site [ion binding]; other site 379731013004 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 379731013005 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 379731013006 substrate binding pocket [chemical binding]; other site 379731013007 membrane-bound complex binding site; other site 379731013008 hinge residues; other site 379731013009 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 379731013010 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 379731013011 substrate binding pocket [chemical binding]; other site 379731013012 membrane-bound complex binding site; other site 379731013013 hinge residues; other site 379731013014 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 379731013015 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 379731013016 substrate binding site [chemical binding]; other site 379731013017 glutamase interaction surface [polypeptide binding]; other site 379731013018 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 379731013019 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 379731013020 catalytic residues [active] 379731013021 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 379731013022 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 379731013023 putative active site pocket [active] 379731013024 4-fold oligomerization interface [polypeptide binding]; other site 379731013025 metal binding residues [ion binding]; metal-binding site 379731013026 3-fold/trimer interface [polypeptide binding]; other site 379731013027 Nitrate and nitrite sensing; Region: NIT; pfam08376 379731013028 ANTAR domain; Region: ANTAR; pfam03861 379731013029 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 379731013030 NMT1-like family; Region: NMT1_2; pfam13379 379731013031 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 379731013032 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731013033 dimer interface [polypeptide binding]; other site 379731013034 conserved gate region; other site 379731013035 putative PBP binding loops; other site 379731013036 ABC-ATPase subunit interface; other site 379731013037 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 379731013038 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 379731013039 Walker A/P-loop; other site 379731013040 ATP binding site [chemical binding]; other site 379731013041 Q-loop/lid; other site 379731013042 ABC transporter signature motif; other site 379731013043 Walker B; other site 379731013044 D-loop; other site 379731013045 H-loop/switch region; other site 379731013046 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 379731013047 Coenzyme A binding pocket [chemical binding]; other site 379731013048 AsmA family; Region: AsmA; pfam05170 379731013049 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 379731013050 adenine DNA glycosylase; Provisional; Region: PRK10880 379731013051 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 379731013052 minor groove reading motif; other site 379731013053 helix-hairpin-helix signature motif; other site 379731013054 substrate binding pocket [chemical binding]; other site 379731013055 active site 379731013056 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 379731013057 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 379731013058 DNA binding and oxoG recognition site [nucleotide binding] 379731013059 oxidative damage protection protein; Provisional; Region: PRK05408 379731013060 Staphylococcal nuclease homologues; Region: SNc; smart00318 379731013061 Catalytic site; other site 379731013062 Staphylococcal nuclease homologue; Region: SNase; pfam00565 379731013063 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 379731013064 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 379731013065 substrate binding pocket [chemical binding]; other site 379731013066 membrane-bound complex binding site; other site 379731013067 hinge residues; other site 379731013068 BCCT family transporter; Region: BCCT; pfam02028 379731013069 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 379731013070 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 379731013071 Walker A/P-loop; other site 379731013072 ATP binding site [chemical binding]; other site 379731013073 Q-loop/lid; other site 379731013074 ABC transporter signature motif; other site 379731013075 Walker B; other site 379731013076 D-loop; other site 379731013077 H-loop/switch region; other site 379731013078 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 379731013079 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 379731013080 substrate binding pocket [chemical binding]; other site 379731013081 membrane-bound complex binding site; other site 379731013082 hinge residues; other site 379731013083 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 379731013084 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731013085 dimer interface [polypeptide binding]; other site 379731013086 conserved gate region; other site 379731013087 putative PBP binding loops; other site 379731013088 ABC-ATPase subunit interface; other site 379731013089 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 379731013090 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 379731013091 dimer interface [polypeptide binding]; other site 379731013092 conserved gate region; other site 379731013093 putative PBP binding loops; other site 379731013094 ABC-ATPase subunit interface; other site 379731013095 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 379731013096 active site 379731013097 phosphate binding residues; other site 379731013098 catalytic residues [active] 379731013099 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731013100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731013101 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 379731013102 putative dimerization interface [polypeptide binding]; other site 379731013103 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 379731013104 hydroxyglutarate oxidase; Provisional; Region: PRK11728 379731013105 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 379731013106 dimerization interface [polypeptide binding]; other site 379731013107 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 379731013108 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 379731013109 dimer interface [polypeptide binding]; other site 379731013110 putative CheW interface [polypeptide binding]; other site 379731013111 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 379731013112 Malonate transporter MadL subunit; Region: MadL; cl04273 379731013113 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 379731013114 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 379731013115 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 379731013116 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 379731013117 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 379731013118 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 379731013119 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 379731013120 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 379731013121 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 379731013122 Coenzyme A transferase; Region: CoA_trans; cl17247 379731013123 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 379731013124 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 379731013125 putative NAD(P) binding site [chemical binding]; other site 379731013126 homotetramer interface [polypeptide binding]; other site 379731013127 homodimer interface [polypeptide binding]; other site 379731013128 active site 379731013129 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 379731013130 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 379731013131 active site 379731013132 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 379731013133 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 379731013134 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 379731013135 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 379731013136 DctM-like transporters; Region: DctM; pfam06808 379731013137 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 379731013138 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 379731013139 dinuclear metal binding motif [ion binding]; other site 379731013140 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 379731013141 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 379731013142 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 379731013143 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 379731013144 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 379731013145 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 379731013146 Dodecin; Region: Dodecin; pfam07311 379731013147 putative S-transferase; Provisional; Region: PRK11752 379731013148 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 379731013149 C-terminal domain interface [polypeptide binding]; other site 379731013150 GSH binding site (G-site) [chemical binding]; other site 379731013151 dimer interface [polypeptide binding]; other site 379731013152 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 379731013153 dimer interface [polypeptide binding]; other site 379731013154 N-terminal domain interface [polypeptide binding]; other site 379731013155 active site 379731013156 Predicted membrane protein [Function unknown]; Region: COG3918 379731013157 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 379731013158 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 379731013159 putative active site [active] 379731013160 putative metal binding site [ion binding]; other site 379731013161 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 379731013162 Predicted acetyltransferase [General function prediction only]; Region: COG2388 379731013163 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 379731013164 catalytic triad [active] 379731013165 active site nucleophile [active] 379731013166 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 379731013167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 379731013168 Walker A/P-loop; other site 379731013169 ATP binding site [chemical binding]; other site 379731013170 Q-loop/lid; other site 379731013171 ABC transporter signature motif; other site 379731013172 Walker B; other site 379731013173 D-loop; other site 379731013174 H-loop/switch region; other site 379731013175 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 379731013176 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 379731013177 active site 379731013178 nucleophile elbow; other site 379731013179 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 379731013180 Predicted membrane protein [Function unknown]; Region: COG2323 379731013181 Transcriptional regulator [Transcription]; Region: LysR; COG0583 379731013182 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 379731013183 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 379731013184 dimerization interface [polypeptide binding]; other site 379731013185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 379731013186 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 379731013187 phosphoglucomutase; Validated; Region: PRK07564 379731013188 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 379731013189 active site 379731013190 substrate binding site [chemical binding]; other site 379731013191 metal binding site [ion binding]; metal-binding site 379731013192 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 379731013193 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 379731013194 putative NAD(P) binding site [chemical binding]; other site 379731013195 putative substrate binding site [chemical binding]; other site 379731013196 catalytic Zn binding site [ion binding]; other site 379731013197 structural Zn binding site [ion binding]; other site 379731013198 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 379731013199 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 379731013200 putative metal binding site [ion binding]; other site 379731013201 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 379731013202 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 379731013203 trimer interface [polypeptide binding]; other site 379731013204 putative metal binding site [ion binding]; other site 379731013205 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 379731013206 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 379731013207 active site 379731013208 Zn binding site [ion binding]; other site 379731013209 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 379731013210 Protein of unknown function; Region: DUF3658; pfam12395 379731013211 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 379731013212 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 379731013213 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 379731013214 FeS/SAM binding site; other site 379731013215 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 379731013216 active site clefts [active] 379731013217 zinc binding site [ion binding]; other site 379731013218 dimer interface [polypeptide binding]; other site 379731013219 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 379731013220 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 379731013221 Sulfate transporter family; Region: Sulfate_transp; pfam00916 379731013222 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 379731013223 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 379731013224 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 379731013225 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 379731013226 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 379731013227 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 379731013228 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 379731013229 D-pathway; other site 379731013230 Subunit I/VIIc interface [polypeptide binding]; other site 379731013231 Subunit I/IV interface [polypeptide binding]; other site 379731013232 Subunit I/II interface [polypeptide binding]; other site 379731013233 Low-spin heme (heme a) binding site [chemical binding]; other site 379731013234 Subunit I/III interface [polypeptide binding]; other site 379731013235 Subunit I/VIIa interface [polypeptide binding]; other site 379731013236 Subunit I/VIa interface [polypeptide binding]; other site 379731013237 Dimer interface; other site 379731013238 Putative water exit pathway; other site 379731013239 Binuclear center (heme a3/CuB) [ion binding]; other site 379731013240 K-pathway; other site 379731013241 Subunit I/Vb interface [polypeptide binding]; other site 379731013242 Putative proton exit pathway; other site 379731013243 Subunit I/VIb interface; other site 379731013244 Subunit I/VIc interface [polypeptide binding]; other site 379731013245 Electron transfer pathway; other site 379731013246 Subunit I/VIIIb interface [polypeptide binding]; other site 379731013247 Subunit I/VIIb interface [polypeptide binding]; other site 379731013248 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 379731013249 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 379731013250 Subunit III/VIIa interface [polypeptide binding]; other site 379731013251 Phospholipid binding site [chemical binding]; other site 379731013252 Subunit I/III interface [polypeptide binding]; other site 379731013253 Subunit III/VIb interface [polypeptide binding]; other site 379731013254 Subunit III/VIa interface; other site 379731013255 Subunit III/Vb interface [polypeptide binding]; other site 379731013256 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 379731013257 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 379731013258 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 379731013259 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 379731013260 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 379731013261 UbiA prenyltransferase family; Region: UbiA; pfam01040 379731013262 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 379731013263 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 379731013264 Cu(I) binding site [ion binding]; other site 379731013265 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 379731013266 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 379731013267 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 379731013268 Secretin and TonB N terminus short domain; Region: STN; smart00965 379731013269 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 379731013270 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 379731013271 N-terminal plug; other site 379731013272 ligand-binding site [chemical binding]; other site 379731013273 fec operon regulator FecR; Reviewed; Region: PRK09774 379731013274 FecR protein; Region: FecR; pfam04773 379731013275 RNA polymerase sigma factor; Provisional; Region: PRK12528 379731013276 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 379731013277 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 379731013278 DNA binding residues [nucleotide binding] 379731013279 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 379731013280 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 379731013281 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 379731013282 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 379731013283 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 379731013284 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 379731013285 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 379731013286 GAF domain; Region: GAF; pfam01590 379731013287 Phytochrome region; Region: PHY; pfam00360 379731013288 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 379731013289 dimer interface [polypeptide binding]; other site 379731013290 phosphorylation site [posttranslational modification] 379731013291 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 379731013292 ATP binding site [chemical binding]; other site 379731013293 Mg2+ binding site [ion binding]; other site 379731013294 G-X-G motif; other site 379731013295 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731013296 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731013297 active site 379731013298 phosphorylation site [posttranslational modification] 379731013299 intermolecular recognition site; other site 379731013300 dimerization interface [polypeptide binding]; other site 379731013301 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731013302 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731013303 active site 379731013304 phosphorylation site [posttranslational modification] 379731013305 intermolecular recognition site; other site 379731013306 dimerization interface [polypeptide binding]; other site 379731013307 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 379731013308 PAS fold; Region: PAS_3; pfam08447 379731013309 putative active site [active] 379731013310 heme pocket [chemical binding]; other site 379731013311 PAS domain S-box; Region: sensory_box; TIGR00229 379731013312 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 379731013313 putative active site [active] 379731013314 heme pocket [chemical binding]; other site 379731013315 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 379731013316 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 379731013317 dimer interface [polypeptide binding]; other site 379731013318 phosphorylation site [posttranslational modification] 379731013319 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 379731013320 ATP binding site [chemical binding]; other site 379731013321 Mg2+ binding site [ion binding]; other site 379731013322 G-X-G motif; other site 379731013323 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 379731013324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 379731013325 active site 379731013326 phosphorylation site [posttranslational modification] 379731013327 intermolecular recognition site; other site 379731013328 dimerization interface [polypeptide binding]; other site 379731013329 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 379731013330 heme binding pocket [chemical binding]; other site 379731013331 heme ligand [chemical binding]; other site 379731013332 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 379731013333 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 379731013334 glutaminase active site [active] 379731013335 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 379731013336 dimer interface [polypeptide binding]; other site 379731013337 active site 379731013338 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 379731013339 dimer interface [polypeptide binding]; other site 379731013340 active site 379731013341 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 379731013342 putative DNA binding site [nucleotide binding]; other site 379731013343 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 379731013344 putative Zn2+ binding site [ion binding]; other site 379731013345 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 379731013346 LysE type translocator; Region: LysE; cl00565 379731013347 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 379731013348 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 379731013349 Substrate binding site; other site 379731013350 Mg++ binding site; other site 379731013351 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 379731013352 active site 379731013353 substrate binding site [chemical binding]; other site 379731013354 CoA binding site [chemical binding]; other site 379731013355 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 379731013356 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 379731013357 gamma subunit interface [polypeptide binding]; other site 379731013358 epsilon subunit interface [polypeptide binding]; other site 379731013359 LBP interface [polypeptide binding]; other site 379731013360 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 379731013361 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 379731013362 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 379731013363 alpha subunit interaction interface [polypeptide binding]; other site 379731013364 Walker A motif; other site 379731013365 ATP binding site [chemical binding]; other site 379731013366 Walker B motif; other site 379731013367 inhibitor binding site; inhibition site 379731013368 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 379731013369 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 379731013370 core domain interface [polypeptide binding]; other site 379731013371 delta subunit interface [polypeptide binding]; other site 379731013372 epsilon subunit interface [polypeptide binding]; other site 379731013373 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 379731013374 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 379731013375 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 379731013376 beta subunit interaction interface [polypeptide binding]; other site 379731013377 Walker A motif; other site 379731013378 ATP binding site [chemical binding]; other site 379731013379 Walker B motif; other site 379731013380 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 379731013381 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 379731013382 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 379731013383 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 379731013384 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 379731013385 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 379731013386 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 379731013387 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 379731013388 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 379731013389 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 379731013390 ParB-like nuclease domain; Region: ParBc; pfam02195 379731013391 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 379731013392 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 379731013393 P-loop; other site 379731013394 Magnesium ion binding site [ion binding]; other site 379731013395 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 379731013396 Magnesium ion binding site [ion binding]; other site 379731013397 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 379731013398 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 379731013399 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 379731013400 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 379731013401 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 379731013402 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 379731013403 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 379731013404 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 379731013405 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 379731013406 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 379731013407 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 379731013408 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 379731013409 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 379731013410 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 379731013411 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 379731013412 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 379731013413 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 379731013414 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 379731013415 trmE is a tRNA modification GTPase; Region: trmE; cd04164 379731013416 G1 box; other site 379731013417 GTP/Mg2+ binding site [chemical binding]; other site 379731013418 Switch I region; other site 379731013419 G2 box; other site 379731013420 Switch II region; other site 379731013421 G3 box; other site 379731013422 G4 box; other site 379731013423 G5 box; other site 379731013424 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 379731013425 membrane protein insertase; Provisional; Region: PRK01318 379731013426 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 379731013427 hypothetical protein; Provisional; Region: PRK14371 379731013428 ribonuclease P; Reviewed; Region: rnpA; PRK00396 379731013429 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399