-- dump date 20140619_100720 -- class Genbank::misc_feature -- table misc_feature_note -- id note 395494000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 395494000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 395494000003 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 395494000004 Walker A motif; other site 395494000005 ATP binding site [chemical binding]; other site 395494000006 Walker B motif; other site 395494000007 arginine finger; other site 395494000008 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 395494000009 DnaA box-binding interface [nucleotide binding]; other site 395494000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 395494000011 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 395494000012 putative DNA binding surface [nucleotide binding]; other site 395494000013 dimer interface [polypeptide binding]; other site 395494000014 beta-clamp/clamp loader binding surface; other site 395494000015 beta-clamp/translesion DNA polymerase binding surface; other site 395494000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 395494000017 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 395494000018 Mg2+ binding site [ion binding]; other site 395494000019 G-X-G motif; other site 395494000020 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 395494000021 anchoring element; other site 395494000022 dimer interface [polypeptide binding]; other site 395494000023 ATP binding site [chemical binding]; other site 395494000024 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 395494000025 active site 395494000026 putative metal-binding site [ion binding]; other site 395494000027 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 395494000028 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 395494000029 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 395494000030 putative active site [active] 395494000031 putative catalytic site [active] 395494000032 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 395494000033 putative active site [active] 395494000034 putative catalytic site [active] 395494000035 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 395494000036 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 395494000037 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395494000038 DNA-binding site [nucleotide binding]; DNA binding site 395494000039 UTRA domain; Region: UTRA; pfam07702 395494000040 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 395494000041 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 395494000042 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395494000043 acyl-activating enzyme (AAE) consensus motif; other site 395494000044 AMP binding site [chemical binding]; other site 395494000045 active site 395494000046 CoA binding site [chemical binding]; other site 395494000047 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395494000048 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395494000049 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395494000050 N-terminal domain interface [polypeptide binding]; other site 395494000051 dimer interface [polypeptide binding]; other site 395494000052 substrate binding pocket (H-site) [chemical binding]; other site 395494000053 carboxy-terminal protease; Provisional; Region: PRK11186 395494000054 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 395494000055 protein binding site [polypeptide binding]; other site 395494000056 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 395494000057 Catalytic dyad [active] 395494000058 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 395494000059 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 395494000060 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 395494000061 hexamer interface [polypeptide binding]; other site 395494000062 ligand binding site [chemical binding]; other site 395494000063 putative active site [active] 395494000064 NAD(P) binding site [chemical binding]; other site 395494000065 Biofilm formation and stress response factor; Region: BsmA; pfam10014 395494000066 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494000067 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494000068 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 395494000069 putative active site [active] 395494000070 heme pocket [chemical binding]; other site 395494000071 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494000072 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000073 metal binding site [ion binding]; metal-binding site 395494000074 active site 395494000075 I-site; other site 395494000076 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 395494000077 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494000078 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494000079 dimer interface [polypeptide binding]; other site 395494000080 putative CheW interface [polypeptide binding]; other site 395494000081 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494000082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494000083 active site 395494000084 phosphorylation site [posttranslational modification] 395494000085 intermolecular recognition site; other site 395494000086 dimerization interface [polypeptide binding]; other site 395494000087 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494000088 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 395494000089 ATP binding site [chemical binding]; other site 395494000090 Mg2+ binding site [ion binding]; other site 395494000091 G-X-G motif; other site 395494000092 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 395494000093 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 395494000094 active site 395494000095 interdomain interaction site; other site 395494000096 putative metal-binding site [ion binding]; other site 395494000097 nucleotide binding site [chemical binding]; other site 395494000098 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 395494000099 domain I; other site 395494000100 DNA binding groove [nucleotide binding] 395494000101 phosphate binding site [ion binding]; other site 395494000102 domain II; other site 395494000103 domain III; other site 395494000104 nucleotide binding site [chemical binding]; other site 395494000105 catalytic site [active] 395494000106 domain IV; other site 395494000107 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 395494000108 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 395494000109 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 395494000110 Protein of unknown function (DUF494); Region: DUF494; pfam04361 395494000111 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 395494000112 DNA protecting protein DprA; Region: dprA; TIGR00732 395494000113 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395494000114 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 395494000115 active site 395494000116 catalytic residues [active] 395494000117 metal binding site [ion binding]; metal-binding site 395494000118 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 395494000119 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 395494000120 putative active site [active] 395494000121 substrate binding site [chemical binding]; other site 395494000122 putative cosubstrate binding site; other site 395494000123 catalytic site [active] 395494000124 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 395494000125 substrate binding site [chemical binding]; other site 395494000126 16S rRNA methyltransferase B; Provisional; Region: PRK10901 395494000127 NusB family; Region: NusB; pfam01029 395494000128 putative RNA binding site [nucleotide binding]; other site 395494000129 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 395494000130 S-adenosylmethionine binding site [chemical binding]; other site 395494000131 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 395494000132 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 395494000133 HAMP domain; Region: HAMP; pfam00672 395494000134 dimerization interface [polypeptide binding]; other site 395494000135 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 395494000136 putative active site [active] 395494000137 heme pocket [chemical binding]; other site 395494000138 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 395494000139 dimer interface [polypeptide binding]; other site 395494000140 phosphorylation site [posttranslational modification] 395494000141 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 395494000142 ATP binding site [chemical binding]; other site 395494000143 Mg2+ binding site [ion binding]; other site 395494000144 G-X-G motif; other site 395494000145 Response regulator receiver domain; Region: Response_reg; pfam00072 395494000146 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494000147 active site 395494000148 phosphorylation site [posttranslational modification] 395494000149 intermolecular recognition site; other site 395494000150 dimerization interface [polypeptide binding]; other site 395494000151 transketolase; Reviewed; Region: PRK12753 395494000152 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 395494000153 TPP-binding site [chemical binding]; other site 395494000154 dimer interface [polypeptide binding]; other site 395494000155 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 395494000156 PYR/PP interface [polypeptide binding]; other site 395494000157 dimer interface [polypeptide binding]; other site 395494000158 TPP binding site [chemical binding]; other site 395494000159 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395494000160 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 395494000161 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 395494000162 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 395494000163 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 395494000164 Phosphoglycerate kinase; Region: PGK; pfam00162 395494000165 substrate binding site [chemical binding]; other site 395494000166 hinge regions; other site 395494000167 ADP binding site [chemical binding]; other site 395494000168 catalytic site [active] 395494000169 pyruvate kinase; Provisional; Region: PRK05826 395494000170 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 395494000171 domain interfaces; other site 395494000172 active site 395494000173 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 395494000174 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 395494000175 intersubunit interface [polypeptide binding]; other site 395494000176 active site 395494000177 zinc binding site [ion binding]; other site 395494000178 Na+ binding site [ion binding]; other site 395494000179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395494000180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395494000181 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 395494000182 putative dimerization interface [polypeptide binding]; other site 395494000183 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 395494000184 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 395494000185 dimer interface [polypeptide binding]; other site 395494000186 active site 395494000187 catalytic residue [active] 395494000188 metal binding site [ion binding]; metal-binding site 395494000189 MoxR-like ATPases [General function prediction only]; Region: COG0714 395494000190 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 395494000191 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 395494000192 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 395494000193 metal ion-dependent adhesion site (MIDAS); other site 395494000194 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 395494000195 AMP binding site [chemical binding]; other site 395494000196 metal binding site [ion binding]; metal-binding site 395494000197 active site 395494000198 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 395494000199 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 395494000200 ATP binding site [chemical binding]; other site 395494000201 active site 395494000202 substrate binding site [chemical binding]; other site 395494000203 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 395494000204 active site clefts [active] 395494000205 zinc binding site [ion binding]; other site 395494000206 dimer interface [polypeptide binding]; other site 395494000207 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 395494000208 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395494000209 active site 395494000210 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 395494000211 putative active site [active] 395494000212 putative catalytic site [active] 395494000213 putative DNA binding site [nucleotide binding]; other site 395494000214 putative phosphate binding site [ion binding]; other site 395494000215 metal binding site A [ion binding]; metal-binding site 395494000216 putative AP binding site [nucleotide binding]; other site 395494000217 putative metal binding site B [ion binding]; other site 395494000218 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395494000219 ligand binding site [chemical binding]; other site 395494000220 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; smart01021 395494000221 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 395494000222 active site residue [active] 395494000223 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 395494000224 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 395494000225 glutamine synthetase; Provisional; Region: glnA; PRK09469 395494000226 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 395494000227 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395494000228 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 395494000229 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395494000230 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 395494000231 putative active site [active] 395494000232 heme pocket [chemical binding]; other site 395494000233 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 395494000234 dimer interface [polypeptide binding]; other site 395494000235 phosphorylation site [posttranslational modification] 395494000236 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 395494000237 ATP binding site [chemical binding]; other site 395494000238 Mg2+ binding site [ion binding]; other site 395494000239 G-X-G motif; other site 395494000240 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 395494000241 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494000242 active site 395494000243 phosphorylation site [posttranslational modification] 395494000244 intermolecular recognition site; other site 395494000245 dimerization interface [polypeptide binding]; other site 395494000246 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 395494000247 Walker A motif; other site 395494000248 ATP binding site [chemical binding]; other site 395494000249 Walker B motif; other site 395494000250 arginine finger; other site 395494000251 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395494000252 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 395494000253 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395494000254 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494000255 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395494000256 Protein of unknown function, DUF486; Region: DUF486; cl01236 395494000257 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 395494000258 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395494000259 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494000260 4Fe-4S binding domain; Region: Fer4; pfam00037 395494000261 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 395494000262 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 395494000263 TPP-binding site [chemical binding]; other site 395494000264 putative dimer interface [polypeptide binding]; other site 395494000265 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 395494000266 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 395494000267 dimer interface [polypeptide binding]; other site 395494000268 PYR/PP interface [polypeptide binding]; other site 395494000269 TPP binding site [chemical binding]; other site 395494000270 substrate binding site [chemical binding]; other site 395494000271 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 395494000272 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 395494000273 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 395494000274 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 395494000275 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 395494000276 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 395494000277 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 395494000278 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 395494000279 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 395494000280 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 395494000281 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 395494000282 substrate binding pocket [chemical binding]; other site 395494000283 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 395494000284 B12 binding site [chemical binding]; other site 395494000285 cobalt ligand [ion binding]; other site 395494000286 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 395494000287 Predicted membrane protein [Function unknown]; Region: COG3431 395494000288 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 395494000289 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 395494000290 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 395494000291 Walker A motif; other site 395494000292 ATP binding site [chemical binding]; other site 395494000293 Walker B motif; other site 395494000294 arginine finger; other site 395494000295 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 395494000296 Membrane fusogenic activity; Region: BMFP; pfam04380 395494000297 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 395494000298 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 395494000299 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395494000300 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 395494000301 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494000302 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 395494000303 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494000304 dimer interface [polypeptide binding]; other site 395494000305 putative CheW interface [polypeptide binding]; other site 395494000306 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 395494000307 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 395494000308 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 395494000309 dimerization interface [polypeptide binding]; other site 395494000310 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 395494000311 dimer interface [polypeptide binding]; other site 395494000312 phosphorylation site [posttranslational modification] 395494000313 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 395494000314 ATP binding site [chemical binding]; other site 395494000315 Mg2+ binding site [ion binding]; other site 395494000316 G-X-G motif; other site 395494000317 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 395494000318 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494000319 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494000320 dimer interface [polypeptide binding]; other site 395494000321 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395494000322 putative CheW interface [polypeptide binding]; other site 395494000323 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395494000324 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395494000325 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 395494000326 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 395494000327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 395494000328 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 395494000329 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 395494000330 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 395494000331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 395494000332 Uncharacterized conserved protein [Function unknown]; Region: COG2308 395494000333 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 395494000334 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 395494000335 active site 395494000336 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 395494000337 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 395494000338 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494000339 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395494000340 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000341 Zn2+ binding site [ion binding]; other site 395494000342 Mg2+ binding site [ion binding]; other site 395494000343 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 395494000344 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 395494000345 FOG: CBS domain [General function prediction only]; Region: COG0517 395494000346 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 395494000347 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494000348 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000349 metal binding site [ion binding]; metal-binding site 395494000350 active site 395494000351 I-site; other site 395494000352 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000353 Zn2+ binding site [ion binding]; other site 395494000354 Mg2+ binding site [ion binding]; other site 395494000355 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 395494000356 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000357 Zn2+ binding site [ion binding]; other site 395494000358 Mg2+ binding site [ion binding]; other site 395494000359 GAF domain; Region: GAF; cl17456 395494000360 GAF domain; Region: GAF_2; pfam13185 395494000361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000362 Zn2+ binding site [ion binding]; other site 395494000363 Mg2+ binding site [ion binding]; other site 395494000364 Hemerythrin; Region: Hemerythrin; cd12107 395494000365 Fe binding site [ion binding]; other site 395494000366 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 395494000367 DNA binding residues [nucleotide binding] 395494000368 dimerization interface [polypeptide binding]; other site 395494000369 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 395494000370 active site residue [active] 395494000371 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 395494000372 dimerization interface [polypeptide binding]; other site 395494000373 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494000374 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494000375 dimer interface [polypeptide binding]; other site 395494000376 putative CheW interface [polypeptide binding]; other site 395494000377 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 395494000378 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 395494000379 active site 395494000380 FMN binding site [chemical binding]; other site 395494000381 substrate binding site [chemical binding]; other site 395494000382 homotetramer interface [polypeptide binding]; other site 395494000383 catalytic residue [active] 395494000384 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395494000385 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395494000386 DNA-binding site [nucleotide binding]; DNA binding site 395494000387 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 395494000388 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 395494000389 tetramer interface [polypeptide binding]; other site 395494000390 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 395494000391 active site 395494000392 Mg2+/Mn2+ binding site [ion binding]; other site 395494000393 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 395494000394 methylcitrate synthase; Provisional; Region: PRK12351 395494000395 oxalacetate binding site [chemical binding]; other site 395494000396 citrylCoA binding site [chemical binding]; other site 395494000397 coenzyme A binding site [chemical binding]; other site 395494000398 catalytic triad [active] 395494000399 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 395494000400 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 395494000401 substrate binding site [chemical binding]; other site 395494000402 ligand binding site [chemical binding]; other site 395494000403 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 395494000404 substrate binding site [chemical binding]; other site 395494000405 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 395494000406 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 395494000407 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395494000408 acyl-activating enzyme (AAE) consensus motif; other site 395494000409 AMP binding site [chemical binding]; other site 395494000410 active site 395494000411 CoA binding site [chemical binding]; other site 395494000412 malate:quinone oxidoreductase; Validated; Region: PRK05257 395494000413 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 395494000414 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 395494000415 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 395494000416 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494000417 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 395494000418 active site 395494000419 ATP binding site [chemical binding]; other site 395494000420 substrate binding site [chemical binding]; other site 395494000421 activation loop (A-loop); other site 395494000422 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 395494000423 dimerization interface [polypeptide binding]; other site 395494000424 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 395494000425 PAS fold; Region: PAS_3; pfam08447 395494000426 putative active site [active] 395494000427 heme pocket [chemical binding]; other site 395494000428 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 395494000429 PAS domain; Region: PAS_9; pfam13426 395494000430 putative active site [active] 395494000431 heme pocket [chemical binding]; other site 395494000432 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494000433 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000434 metal binding site [ion binding]; metal-binding site 395494000435 active site 395494000436 I-site; other site 395494000437 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 395494000438 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395494000439 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 395494000440 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 395494000441 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 395494000442 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 395494000443 putative active site [active] 395494000444 putative substrate binding site [chemical binding]; other site 395494000445 putative cosubstrate binding site; other site 395494000446 catalytic site [active] 395494000447 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 395494000448 glutamate racemase; Provisional; Region: PRK00865 395494000449 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 395494000450 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395494000451 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395494000452 ABC transporter; Region: ABC_tran_2; pfam12848 395494000453 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395494000454 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395494000455 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 395494000456 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395494000457 ligand binding site [chemical binding]; other site 395494000458 Glutamate-cysteine ligase; Region: GshA; pfam08886 395494000459 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 395494000460 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 395494000461 ApbE family; Region: ApbE; pfam02424 395494000462 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 395494000463 active pocket/dimerization site; other site 395494000464 active site 395494000465 phosphorylation site [posttranslational modification] 395494000466 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 395494000467 dimerization domain swap beta strand [polypeptide binding]; other site 395494000468 regulatory protein interface [polypeptide binding]; other site 395494000469 active site 395494000470 regulatory phosphorylation site [posttranslational modification]; other site 395494000471 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 395494000472 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 395494000473 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 395494000474 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 395494000475 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 395494000476 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 395494000477 ATP binding site [chemical binding]; other site 395494000478 Mg2+ binding site [ion binding]; other site 395494000479 G-X-G motif; other site 395494000480 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395494000481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494000482 active site 395494000483 phosphorylation site [posttranslational modification] 395494000484 intermolecular recognition site; other site 395494000485 dimerization interface [polypeptide binding]; other site 395494000486 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 395494000487 DNA binding residues [nucleotide binding] 395494000488 dimerization interface [polypeptide binding]; other site 395494000489 CheB methylesterase; Region: CheB_methylest; pfam01339 395494000490 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 395494000491 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395494000492 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 395494000493 PAS domain; Region: PAS_10; pfam13596 395494000494 PAS fold; Region: PAS_4; pfam08448 395494000495 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 395494000496 putative active site [active] 395494000497 heme pocket [chemical binding]; other site 395494000498 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 395494000499 PAS domain; Region: PAS_9; pfam13426 395494000500 putative active site [active] 395494000501 heme pocket [chemical binding]; other site 395494000502 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494000503 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000504 metal binding site [ion binding]; metal-binding site 395494000505 active site 395494000506 I-site; other site 395494000507 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 395494000508 PAS fold; Region: PAS_2; pfam08446 395494000509 GAF domain; Region: GAF; pfam01590 395494000510 Phytochrome region; Region: PHY; pfam00360 395494000511 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 395494000512 heme binding pocket [chemical binding]; other site 395494000513 heme ligand [chemical binding]; other site 395494000514 PAS fold; Region: PAS_2; pfam08446 395494000515 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494000516 GAF domain; Region: GAF; pfam01590 395494000517 Phytochrome region; Region: PHY; pfam00360 395494000518 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 395494000519 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494000520 putative active site [active] 395494000521 heme pocket [chemical binding]; other site 395494000522 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 395494000523 putative active site [active] 395494000524 heme pocket [chemical binding]; other site 395494000525 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 395494000526 PAS domain; Region: PAS_9; pfam13426 395494000527 putative active site [active] 395494000528 heme pocket [chemical binding]; other site 395494000529 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494000530 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000531 metal binding site [ion binding]; metal-binding site 395494000532 active site 395494000533 I-site; other site 395494000534 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 395494000535 DNA photolyase; Region: DNA_photolyase; pfam00875 395494000536 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 395494000537 HDOD domain; Region: HDOD; pfam08668 395494000538 Response regulator receiver domain; Region: Response_reg; pfam00072 395494000539 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494000540 active site 395494000541 phosphorylation site [posttranslational modification] 395494000542 intermolecular recognition site; other site 395494000543 dimerization interface [polypeptide binding]; other site 395494000544 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494000545 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000546 metal binding site [ion binding]; metal-binding site 395494000547 active site 395494000548 I-site; other site 395494000549 HopJ type III effector protein; Region: HopJ; pfam08888 395494000550 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 395494000551 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 395494000552 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395494000553 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 395494000554 S-adenosylmethionine binding site [chemical binding]; other site 395494000555 muropeptide transporter; Reviewed; Region: ampG; PRK11902 395494000556 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395494000557 putative substrate translocation pore; other site 395494000558 N-acetylglutamate synthase; Validated; Region: PRK05279 395494000559 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 395494000560 putative feedback inhibition sensing region; other site 395494000561 putative nucleotide binding site [chemical binding]; other site 395494000562 putative substrate binding site [chemical binding]; other site 395494000563 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395494000564 Coenzyme A binding pocket [chemical binding]; other site 395494000565 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 395494000566 active site 1 [active] 395494000567 dimer interface [polypeptide binding]; other site 395494000568 hexamer interface [polypeptide binding]; other site 395494000569 active site 2 [active] 395494000570 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 395494000571 RNA methyltransferase, RsmE family; Region: TIGR00046 395494000572 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 395494000573 putative catalytic residue [active] 395494000574 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 395494000575 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 395494000576 active site 395494000577 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 395494000578 TrkA-N domain; Region: TrkA_N; pfam02254 395494000579 TrkA-C domain; Region: TrkA_C; pfam02080 395494000580 TrkA-N domain; Region: TrkA_N; pfam02254 395494000581 TrkA-C domain; Region: TrkA_C; pfam02080 395494000582 Cation transport protein; Region: TrkH; cl17365 395494000583 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 395494000584 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 395494000585 putative binding surface; other site 395494000586 active site 395494000587 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 395494000588 ATP binding site [chemical binding]; other site 395494000589 Mg2+ binding site [ion binding]; other site 395494000590 G-X-G motif; other site 395494000591 hypothetical protein; Validated; Region: PRK00228 395494000592 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 395494000593 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 395494000594 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395494000595 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 395494000596 dihydroorotase; Provisional; Region: PRK07627 395494000597 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 395494000598 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 395494000599 active site 395494000600 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 395494000601 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 395494000602 active site 395494000603 Zn binding site [ion binding]; other site 395494000604 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 395494000605 putative catalytic site [active] 395494000606 putative phosphate binding site [ion binding]; other site 395494000607 active site 395494000608 metal binding site A [ion binding]; metal-binding site 395494000609 DNA binding site [nucleotide binding] 395494000610 putative AP binding site [nucleotide binding]; other site 395494000611 putative metal binding site B [ion binding]; other site 395494000612 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395494000613 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 395494000614 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 395494000615 proline aminopeptidase P II; Provisional; Region: PRK10879 395494000616 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 395494000617 active site 395494000618 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 395494000619 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 395494000620 Substrate binding site; other site 395494000621 metal-binding site 395494000622 Phosphotransferase enzyme family; Region: APH; pfam01636 395494000623 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 395494000624 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 395494000625 Organic solvent tolerance protein; Region: OstA_C; pfam04453 395494000626 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 395494000627 SurA N-terminal domain; Region: SurA_N; pfam09312 395494000628 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 395494000629 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 395494000630 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 395494000631 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 395494000632 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 395494000633 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 395494000634 S-adenosylmethionine binding site [chemical binding]; other site 395494000635 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000636 Zn2+ binding site [ion binding]; other site 395494000637 Mg2+ binding site [ion binding]; other site 395494000638 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395494000639 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 395494000640 dimer interface [polypeptide binding]; other site 395494000641 active site 395494000642 metal binding site [ion binding]; metal-binding site 395494000643 glutathione binding site [chemical binding]; other site 395494000644 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 395494000645 substrate binding site [chemical binding]; other site 395494000646 dimer interface [polypeptide binding]; other site 395494000647 ATP binding site [chemical binding]; other site 395494000648 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 395494000649 thiamine phosphate binding site [chemical binding]; other site 395494000650 active site 395494000651 pyrophosphate binding site [ion binding]; other site 395494000652 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 395494000653 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 395494000654 inhibitor-cofactor binding pocket; inhibition site 395494000655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494000656 catalytic residue [active] 395494000657 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 395494000658 G1 box; other site 395494000659 GTP/Mg2+ binding site [chemical binding]; other site 395494000660 Switch I region; other site 395494000661 G2 box; other site 395494000662 G3 box; other site 395494000663 Switch II region; other site 395494000664 G4 box; other site 395494000665 G5 box; other site 395494000666 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 395494000667 dimer interface [polypeptide binding]; other site 395494000668 allosteric magnesium binding site [ion binding]; other site 395494000669 active site 395494000670 aspartate-rich active site metal binding site; other site 395494000671 Schiff base residues; other site 395494000672 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 395494000673 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 395494000674 Transglycosylase; Region: Transgly; pfam00912 395494000675 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 395494000676 Cell division protein FtsA; Region: FtsA; cl17206 395494000677 Competence protein A; Region: Competence_A; pfam11104 395494000678 Cell division protein FtsA; Region: FtsA; pfam14450 395494000679 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 395494000680 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 395494000681 Pilus assembly protein, PilO; Region: PilO; pfam04350 395494000682 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 395494000683 Pilus assembly protein, PilP; Region: PilP; pfam04351 395494000684 AMIN domain; Region: AMIN; pfam11741 395494000685 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 395494000686 Secretin and TonB N terminus short domain; Region: STN; smart00965 395494000687 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 395494000688 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395494000689 shikimate kinase; Reviewed; Region: aroK; PRK00131 395494000690 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 395494000691 ADP binding site [chemical binding]; other site 395494000692 magnesium binding site [ion binding]; other site 395494000693 putative shikimate binding site; other site 395494000694 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 395494000695 active site 395494000696 dimer interface [polypeptide binding]; other site 395494000697 metal binding site [ion binding]; metal-binding site 395494000698 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 395494000699 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000700 Zn2+ binding site [ion binding]; other site 395494000701 Mg2+ binding site [ion binding]; other site 395494000702 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 395494000703 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 395494000704 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 395494000705 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 395494000706 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 395494000707 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 395494000708 Type II transport protein GspH; Region: GspH; pfam12019 395494000709 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 395494000710 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 395494000711 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 395494000712 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 395494000713 active site 395494000714 dimer interface [polypeptide binding]; other site 395494000715 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 395494000716 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 395494000717 active site 395494000718 FMN binding site [chemical binding]; other site 395494000719 substrate binding site [chemical binding]; other site 395494000720 3Fe-4S cluster binding site [ion binding]; other site 395494000721 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 395494000722 domain interface; other site 395494000723 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 395494000724 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395494000725 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 395494000726 substrate binding site [chemical binding]; other site 395494000727 active site 395494000728 primosome assembly protein PriA; Validated; Region: PRK05580 395494000729 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 395494000730 ATP binding site [chemical binding]; other site 395494000731 putative Mg++ binding site [ion binding]; other site 395494000732 helicase superfamily c-terminal domain; Region: HELICc; smart00490 395494000733 nucleotide binding region [chemical binding]; other site 395494000734 ATP-binding site [chemical binding]; other site 395494000735 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395494000736 FAD binding domain; Region: FAD_binding_4; pfam01565 395494000737 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 395494000738 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 395494000739 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 395494000740 active site 395494000741 HIGH motif; other site 395494000742 KMSK motif region; other site 395494000743 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 395494000744 tRNA binding surface [nucleotide binding]; other site 395494000745 anticodon binding site; other site 395494000746 Sporulation related domain; Region: SPOR; pfam05036 395494000747 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 395494000748 catalytic residues [active] 395494000749 hinge region; other site 395494000750 alpha helical domain; other site 395494000751 short chain dehydrogenase; Provisional; Region: PRK07024 395494000752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000753 NAD(P) binding site [chemical binding]; other site 395494000754 active site 395494000755 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 395494000756 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 395494000757 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 395494000758 putative active site [active] 395494000759 putative substrate binding site [chemical binding]; other site 395494000760 ATP binding site [chemical binding]; other site 395494000761 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 395494000762 MEKHLA domain; Region: MEKHLA; pfam08670 395494000763 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 395494000764 Part of AAA domain; Region: AAA_19; pfam13245 395494000765 Family description; Region: UvrD_C_2; pfam13538 395494000766 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 395494000767 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 395494000768 Ligand Binding Site [chemical binding]; other site 395494000769 pteridine reductase; Provisional; Region: PRK09135 395494000770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000771 NAD(P) binding site [chemical binding]; other site 395494000772 active site 395494000773 Uncharacterized conserved protein [Function unknown]; Region: COG1565 395494000774 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 395494000775 Ca2+ binding site [ion binding]; other site 395494000776 EF-hand domain pair; Region: EF_hand_5; pfam13499 395494000777 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 395494000778 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 395494000779 active site 395494000780 NTP binding site [chemical binding]; other site 395494000781 metal binding triad [ion binding]; metal-binding site 395494000782 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 395494000783 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 395494000784 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395494000785 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 395494000786 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395494000787 catalytic residue [active] 395494000788 recombination associated protein; Reviewed; Region: rdgC; PRK00321 395494000789 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 395494000790 DNA polymerase I; Provisional; Region: PRK05755 395494000791 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 395494000792 active site 395494000793 metal binding site 1 [ion binding]; metal-binding site 395494000794 putative 5' ssDNA interaction site; other site 395494000795 metal binding site 3; metal-binding site 395494000796 metal binding site 2 [ion binding]; metal-binding site 395494000797 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 395494000798 putative DNA binding site [nucleotide binding]; other site 395494000799 putative metal binding site [ion binding]; other site 395494000800 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 395494000801 active site 395494000802 catalytic site [active] 395494000803 substrate binding site [chemical binding]; other site 395494000804 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 395494000805 active site 395494000806 DNA binding site [nucleotide binding] 395494000807 catalytic site [active] 395494000808 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 395494000809 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395494000810 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 395494000811 putative active site [active] 395494000812 Predicted membrane protein [Function unknown]; Region: COG2246 395494000813 GtrA-like protein; Region: GtrA; pfam04138 395494000814 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395494000815 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 395494000816 BNR repeat-like domain; Region: BNR_2; pfam13088 395494000817 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 395494000818 homooctamer interface [polypeptide binding]; other site 395494000819 active site 395494000820 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 395494000821 UGMP family protein; Validated; Region: PRK09604 395494000822 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 395494000823 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494000824 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000825 metal binding site [ion binding]; metal-binding site 395494000826 active site 395494000827 I-site; other site 395494000828 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 395494000829 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 395494000830 ATP binding site [chemical binding]; other site 395494000831 substrate interface [chemical binding]; other site 395494000832 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 395494000833 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 395494000834 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 395494000835 protein binding site [polypeptide binding]; other site 395494000836 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 395494000837 Catalytic dyad [active] 395494000838 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 395494000839 Peptidase family M23; Region: Peptidase_M23; pfam01551 395494000840 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 395494000841 phosphoglyceromutase; Provisional; Region: PRK05434 395494000842 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 395494000843 dimerization interface [polypeptide binding]; other site 395494000844 putative DNA binding site [nucleotide binding]; other site 395494000845 putative Zn2+ binding site [ion binding]; other site 395494000846 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 395494000847 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494000848 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395494000849 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494000850 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395494000851 Protein export membrane protein; Region: SecD_SecF; cl14618 395494000852 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 395494000853 O-Antigen ligase; Region: Wzy_C; pfam04932 395494000854 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 395494000855 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 395494000856 active site residue [active] 395494000857 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 395494000858 GSH binding site [chemical binding]; other site 395494000859 catalytic residues [active] 395494000860 preprotein translocase subunit SecB; Validated; Region: PRK05751 395494000861 SecA binding site; other site 395494000862 Preprotein binding site; other site 395494000863 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 395494000864 Src Homology 3 domain superfamily; Region: SH3; cl17036 395494000865 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 395494000866 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 395494000867 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 395494000868 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 395494000869 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 395494000870 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 395494000871 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 395494000872 Walker A motif; other site 395494000873 ATP binding site [chemical binding]; other site 395494000874 Walker B motif; other site 395494000875 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 395494000876 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395494000877 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395494000878 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 395494000879 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 395494000880 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 395494000881 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 395494000882 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 395494000883 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 395494000884 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 395494000885 Competence protein A; Region: Competence_A; pfam11104 395494000886 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 395494000887 Secretin and TonB N terminus short domain; Region: STN; pfam07660 395494000888 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 395494000889 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395494000890 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 395494000891 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 395494000892 binding surface 395494000893 TPR motif; other site 395494000894 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 395494000895 TPR motif; other site 395494000896 binding surface 395494000897 TPR repeat; Region: TPR_11; pfam13414 395494000898 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000899 Zn2+ binding site [ion binding]; other site 395494000900 Mg2+ binding site [ion binding]; other site 395494000901 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 395494000902 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000903 Zn2+ binding site [ion binding]; other site 395494000904 Mg2+ binding site [ion binding]; other site 395494000905 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 395494000906 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395494000907 active site 395494000908 biotin synthase; Region: bioB; TIGR00433 395494000909 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 395494000910 FeS/SAM binding site; other site 395494000911 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 395494000912 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 395494000913 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 395494000914 substrate-cofactor binding pocket; other site 395494000915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494000916 catalytic residue [active] 395494000917 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395494000918 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 395494000919 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 395494000920 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 395494000921 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 395494000922 S-adenosylmethionine binding site [chemical binding]; other site 395494000923 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 395494000924 AAA domain; Region: AAA_26; pfam13500 395494000925 Family description; Region: DsbD_2; pfam13386 395494000926 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 395494000927 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 395494000928 Cu(I) binding site [ion binding]; other site 395494000929 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395494000930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494000931 active site 395494000932 phosphorylation site [posttranslational modification] 395494000933 intermolecular recognition site; other site 395494000934 dimerization interface [polypeptide binding]; other site 395494000935 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 395494000936 DNA binding residues [nucleotide binding] 395494000937 dimerization interface [polypeptide binding]; other site 395494000938 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 395494000939 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 395494000940 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 395494000941 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 395494000942 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 395494000943 KilA-N domain; Region: KilA-N; pfam04383 395494000944 recombination factor protein RarA; Reviewed; Region: PRK13342 395494000945 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 395494000946 Walker A motif; other site 395494000947 ATP binding site [chemical binding]; other site 395494000948 Walker B motif; other site 395494000949 arginine finger; other site 395494000950 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 395494000951 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395494000952 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 395494000953 S-adenosylmethionine binding site [chemical binding]; other site 395494000954 seryl-tRNA synthetase; Provisional; Region: PRK05431 395494000955 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 395494000956 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 395494000957 dimer interface [polypeptide binding]; other site 395494000958 active site 395494000959 motif 1; other site 395494000960 motif 2; other site 395494000961 motif 3; other site 395494000962 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 395494000963 substrate binding pocket [chemical binding]; other site 395494000964 membrane-bound complex binding site; other site 395494000965 hinge residues; other site 395494000966 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 395494000967 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395494000968 catalytic residue [active] 395494000969 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 395494000970 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 395494000971 Low-spin heme binding site [chemical binding]; other site 395494000972 Putative water exit pathway; other site 395494000973 Binuclear center (active site) [active] 395494000974 Putative proton exit pathway; other site 395494000975 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 395494000976 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 395494000977 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 395494000978 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 395494000979 Cytochrome c; Region: Cytochrom_C; pfam00034 395494000980 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 395494000981 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 395494000982 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 395494000983 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 395494000984 FixH; Region: FixH; pfam05751 395494000985 YtkA-like; Region: YtkA; pfam13115 395494000986 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 395494000987 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395494000988 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 395494000989 metal-binding site [ion binding] 395494000990 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494000991 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 395494000992 motif II; other site 395494000993 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 395494000994 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 395494000995 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 395494000996 ligand binding site [chemical binding]; other site 395494000997 flexible hinge region; other site 395494000998 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 395494000999 putative switch regulator; other site 395494001000 non-specific DNA interactions [nucleotide binding]; other site 395494001001 DNA binding site [nucleotide binding] 395494001002 sequence specific DNA binding site [nucleotide binding]; other site 395494001003 putative cAMP binding site [chemical binding]; other site 395494001004 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 395494001005 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 395494001006 FeS/SAM binding site; other site 395494001007 HemN C-terminal domain; Region: HemN_C; pfam06969 395494001008 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 395494001009 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395494001010 minor groove reading motif; other site 395494001011 helix-hairpin-helix signature motif; other site 395494001012 substrate binding pocket [chemical binding]; other site 395494001013 active site 395494001014 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 395494001015 DNA binding and oxoG recognition site [nucleotide binding] 395494001016 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 395494001017 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 395494001018 TrkA-N domain; Region: TrkA_N; pfam02254 395494001019 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 395494001020 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 395494001021 putative active site [active] 395494001022 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 395494001023 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 395494001024 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 395494001025 active site 395494001026 motif I; other site 395494001027 motif II; other site 395494001028 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 395494001029 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 395494001030 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 395494001031 OstA-like protein; Region: OstA; pfam03968 395494001032 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 395494001033 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 395494001034 Walker A/P-loop; other site 395494001035 ATP binding site [chemical binding]; other site 395494001036 Q-loop/lid; other site 395494001037 ABC transporter signature motif; other site 395494001038 Walker B; other site 395494001039 D-loop; other site 395494001040 H-loop/switch region; other site 395494001041 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 395494001042 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 395494001043 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 395494001044 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 395494001045 30S subunit binding site; other site 395494001046 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 395494001047 active site 395494001048 phosphorylation site [posttranslational modification] 395494001049 HPr kinase/phosphorylase; Provisional; Region: PRK05428 395494001050 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 395494001051 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 395494001052 Hpr binding site; other site 395494001053 active site 395494001054 homohexamer subunit interaction site [polypeptide binding]; other site 395494001055 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 395494001056 NGN-insert domain found between N-terminal domain (D1) and C-terminal KOW domain (DIII) repeats of some N-Utilization Substance G (NusG) N-terminal (NGN); Region: NGN-insert_like; cd09910 395494001057 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 395494001058 aromatic acid decarboxylase; Validated; Region: PRK05920 395494001059 Flavoprotein; Region: Flavoprotein; pfam02441 395494001060 hypothetical protein; Provisional; Region: PRK08999 395494001061 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 395494001062 active site 395494001063 8-oxo-dGMP binding site [chemical binding]; other site 395494001064 nudix motif; other site 395494001065 metal binding site [ion binding]; metal-binding site 395494001066 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 395494001067 thiamine phosphate binding site [chemical binding]; other site 395494001068 active site 395494001069 pyrophosphate binding site [ion binding]; other site 395494001070 Domain of unknown function (DUF329); Region: DUF329; pfam03884 395494001071 hypothetical protein; Provisional; Region: PRK05287 395494001072 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 395494001073 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 395494001074 CoA-binding site [chemical binding]; other site 395494001075 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 395494001076 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 395494001077 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 395494001078 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 395494001079 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395494001080 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395494001081 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 395494001082 Domain of unknown function DUF21; Region: DUF21; pfam01595 395494001083 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 395494001084 Transporter associated domain; Region: CorC_HlyC; smart01091 395494001085 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 395494001086 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 395494001087 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 395494001088 active site 395494001089 phosphate binding residues; other site 395494001090 catalytic residues [active] 395494001091 Cytochrome c; Region: Cytochrom_C; cl11414 395494001092 Cytochrome c; Region: Cytochrom_C; cl11414 395494001093 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395494001094 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 395494001095 dimerization interface [polypeptide binding]; other site 395494001096 ligand binding site [chemical binding]; other site 395494001097 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395494001098 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 395494001099 TM-ABC transporter signature motif; other site 395494001100 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395494001101 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 395494001102 TM-ABC transporter signature motif; other site 395494001103 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395494001104 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395494001105 Walker A/P-loop; other site 395494001106 ATP binding site [chemical binding]; other site 395494001107 Q-loop/lid; other site 395494001108 ABC transporter signature motif; other site 395494001109 Walker B; other site 395494001110 D-loop; other site 395494001111 H-loop/switch region; other site 395494001112 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395494001113 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395494001114 Walker A/P-loop; other site 395494001115 ATP binding site [chemical binding]; other site 395494001116 Q-loop/lid; other site 395494001117 ABC transporter signature motif; other site 395494001118 Walker B; other site 395494001119 D-loop; other site 395494001120 H-loop/switch region; other site 395494001121 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 395494001122 HD domain; Region: HD_4; pfam13328 395494001123 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 395494001124 synthetase active site [active] 395494001125 NTP binding site [chemical binding]; other site 395494001126 metal binding site [ion binding]; metal-binding site 395494001127 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 395494001128 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395494001129 EVE domain; Region: EVE; cl00728 395494001130 Protein of unknown function (DUF445); Region: DUF445; pfam04286 395494001131 Cell division protein ZapA; Region: ZapA; pfam05164 395494001132 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 395494001133 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 395494001134 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 395494001135 N-terminal plug; other site 395494001136 ligand-binding site [chemical binding]; other site 395494001137 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 395494001138 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 395494001139 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 395494001140 homodimer interface [polypeptide binding]; other site 395494001141 Walker A motif; other site 395494001142 ATP binding site [chemical binding]; other site 395494001143 hydroxycobalamin binding site [chemical binding]; other site 395494001144 Walker B motif; other site 395494001145 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 395494001146 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395494001147 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 395494001148 Walker A/P-loop; other site 395494001149 ATP binding site [chemical binding]; other site 395494001150 Q-loop/lid; other site 395494001151 ABC transporter signature motif; other site 395494001152 Walker B; other site 395494001153 D-loop; other site 395494001154 H-loop/switch region; other site 395494001155 peroxidase; Provisional; Region: PRK15000 395494001156 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 395494001157 dimer interface [polypeptide binding]; other site 395494001158 decamer (pentamer of dimers) interface [polypeptide binding]; other site 395494001159 catalytic triad [active] 395494001160 peroxidatic and resolving cysteines [active] 395494001161 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 395494001162 active site residue [active] 395494001163 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 395494001164 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494001165 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395494001166 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 395494001167 active site residue [active] 395494001168 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 395494001169 CPxP motif; other site 395494001170 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 395494001171 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395494001172 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395494001173 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494001174 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494001175 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494001176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 395494001177 MraZ protein; Region: MraZ; pfam02381 395494001178 MraZ protein; Region: MraZ; pfam02381 395494001179 MraW methylase family; Region: Methyltransf_5; cl17771 395494001180 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 395494001181 Cell division protein FtsL; Region: FtsL; pfam04999 395494001182 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 395494001183 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 395494001184 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 395494001185 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 395494001186 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395494001187 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494001188 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395494001189 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 395494001190 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395494001191 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494001192 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 395494001193 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 395494001194 Mg++ binding site [ion binding]; other site 395494001195 putative catalytic motif [active] 395494001196 putative substrate binding site [chemical binding]; other site 395494001197 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 395494001198 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494001199 cell division protein FtsW; Region: ftsW; TIGR02614 395494001200 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 395494001201 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 395494001202 active site 395494001203 homodimer interface [polypeptide binding]; other site 395494001204 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 395494001205 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395494001206 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494001207 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395494001208 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 395494001209 FAD binding domain; Region: FAD_binding_4; pfam01565 395494001210 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 395494001211 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 395494001212 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 395494001213 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395494001214 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 395494001215 Cell division protein FtsQ; Region: FtsQ; pfam03799 395494001216 cell division protein FtsA; Region: ftsA; TIGR01174 395494001217 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 395494001218 nucleotide binding site [chemical binding]; other site 395494001219 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 395494001220 Cell division protein FtsA; Region: FtsA; pfam14450 395494001221 cell division protein FtsZ; Validated; Region: PRK09330 395494001222 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 395494001223 nucleotide binding site [chemical binding]; other site 395494001224 SulA interaction site; other site 395494001225 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 395494001226 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 395494001227 Protein of unknown function (DUF721); Region: DUF721; pfam05258 395494001228 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 395494001229 Peptidase family M23; Region: Peptidase_M23; pfam01551 395494001230 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 395494001231 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 395494001232 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 395494001233 SEC-C motif; Region: SEC-C; pfam02810 395494001234 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395494001235 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 395494001236 ligand binding site [chemical binding]; other site 395494001237 flexible hinge region; other site 395494001238 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 395494001239 heterotetramer interface [polypeptide binding]; other site 395494001240 active site pocket [active] 395494001241 cleavage site 395494001242 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 395494001243 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 395494001244 Walker A motif; other site 395494001245 ATP binding site [chemical binding]; other site 395494001246 Walker B motif; other site 395494001247 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 395494001248 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 395494001249 active site 395494001250 catalytic residues [active] 395494001251 metal binding site [ion binding]; metal-binding site 395494001252 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 395494001253 OsmC-like protein; Region: OsmC; cl00767 395494001254 Uncharacterized conserved protein [Function unknown]; Region: COG1434 395494001255 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 395494001256 putative active site [active] 395494001257 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 395494001258 23S rRNA interface [nucleotide binding]; other site 395494001259 L3 interface [polypeptide binding]; other site 395494001260 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 395494001261 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 395494001262 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 395494001263 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 395494001264 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 395494001265 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 395494001266 SlyX; Region: SlyX; pfam04102 395494001267 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 395494001268 putative peptidase; Provisional; Region: PRK11649 395494001269 Peptidase family M23; Region: Peptidase_M23; pfam01551 395494001270 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 395494001271 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 395494001272 active site 395494001273 HIGH motif; other site 395494001274 dimer interface [polypeptide binding]; other site 395494001275 KMSKS motif; other site 395494001276 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 395494001277 RNA binding surface [nucleotide binding]; other site 395494001278 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 395494001279 Yqey-like protein; Region: YqeY; pfam09424 395494001280 DNA primase; Validated; Region: dnaG; PRK05667 395494001281 CHC2 zinc finger; Region: zf-CHC2; pfam01807 395494001282 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 395494001283 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 395494001284 active site 395494001285 metal binding site [ion binding]; metal-binding site 395494001286 interdomain interaction site; other site 395494001287 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 395494001288 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 395494001289 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 395494001290 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 395494001291 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 395494001292 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 395494001293 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 395494001294 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395494001295 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 395494001296 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 395494001297 DNA binding residues [nucleotide binding] 395494001298 metabolite-proton symporter; Region: 2A0106; TIGR00883 395494001299 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395494001300 putative substrate translocation pore; other site 395494001301 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 395494001302 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 395494001303 substrate binding pocket [chemical binding]; other site 395494001304 chain length determination region; other site 395494001305 substrate-Mg2+ binding site; other site 395494001306 catalytic residues [active] 395494001307 aspartate-rich region 1; other site 395494001308 active site lid residues [active] 395494001309 aspartate-rich region 2; other site 395494001310 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494001311 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 395494001312 dimer interface [polypeptide binding]; other site 395494001313 phosphorylation site [posttranslational modification] 395494001314 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 395494001315 ATP binding site [chemical binding]; other site 395494001316 Mg2+ binding site [ion binding]; other site 395494001317 G-X-G motif; other site 395494001318 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395494001319 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001320 active site 395494001321 phosphorylation site [posttranslational modification] 395494001322 intermolecular recognition site; other site 395494001323 dimerization interface [polypeptide binding]; other site 395494001324 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 395494001325 Walker A motif; other site 395494001326 ATP binding site [chemical binding]; other site 395494001327 Walker B motif; other site 395494001328 arginine finger; other site 395494001329 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395494001330 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 395494001331 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 395494001332 amidase catalytic site [active] 395494001333 Zn binding residues [ion binding]; other site 395494001334 substrate binding site [chemical binding]; other site 395494001335 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 395494001336 ATP cone domain; Region: ATP-cone; pfam03477 395494001337 ATP cone domain; Region: ATP-cone; pfam03477 395494001338 Class I ribonucleotide reductase; Region: RNR_I; cd01679 395494001339 active site 395494001340 dimer interface [polypeptide binding]; other site 395494001341 catalytic residues [active] 395494001342 effector binding site; other site 395494001343 R2 peptide binding site; other site 395494001344 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 395494001345 dimer interface [polypeptide binding]; other site 395494001346 putative radical transfer pathway; other site 395494001347 diiron center [ion binding]; other site 395494001348 tyrosyl radical; other site 395494001349 SEFIR domain; Region: SEFIR; pfam08357 395494001350 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 395494001351 dimerization interface [polypeptide binding]; other site 395494001352 putative DNA binding site [nucleotide binding]; other site 395494001353 putative Zn2+ binding site [ion binding]; other site 395494001354 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 395494001355 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494001356 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494001357 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 395494001358 HsdM N-terminal domain; Region: HsdM_N; pfam12161 395494001359 Methyltransferase domain; Region: Methyltransf_26; pfam13659 395494001360 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 395494001361 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 395494001362 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 395494001363 ATP binding site [chemical binding]; other site 395494001364 putative Mg++ binding site [ion binding]; other site 395494001365 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 395494001366 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494001367 GAF domain; Region: GAF; pfam01590 395494001368 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 395494001369 PAS fold; Region: PAS_3; pfam08447 395494001370 putative active site [active] 395494001371 heme pocket [chemical binding]; other site 395494001372 PAS fold; Region: PAS_3; pfam08447 395494001373 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 395494001374 putative active site [active] 395494001375 heme pocket [chemical binding]; other site 395494001376 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494001377 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 395494001378 dimer interface [polypeptide binding]; other site 395494001379 phosphorylation site [posttranslational modification] 395494001380 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 395494001381 ATP binding site [chemical binding]; other site 395494001382 Mg2+ binding site [ion binding]; other site 395494001383 G-X-G motif; other site 395494001384 Response regulator receiver domain; Region: Response_reg; pfam00072 395494001385 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001386 active site 395494001387 phosphorylation site [posttranslational modification] 395494001388 intermolecular recognition site; other site 395494001389 dimerization interface [polypeptide binding]; other site 395494001390 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 395494001391 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 395494001392 active site 395494001393 nucleophile elbow; other site 395494001394 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 395494001395 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 395494001396 chorismate binding enzyme; Region: Chorismate_bind; cl10555 395494001397 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 395494001398 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494001399 Zn2+ binding site [ion binding]; other site 395494001400 Mg2+ binding site [ion binding]; other site 395494001401 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 395494001402 synthetase active site [active] 395494001403 NTP binding site [chemical binding]; other site 395494001404 metal binding site [ion binding]; metal-binding site 395494001405 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 395494001406 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 395494001407 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 395494001408 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 395494001409 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 395494001410 catalytic site [active] 395494001411 G-X2-G-X-G-K; other site 395494001412 hypothetical protein; Provisional; Region: PRK11820 395494001413 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 395494001414 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 395494001415 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 395494001416 active site 395494001417 ribonuclease PH; Reviewed; Region: rph; PRK00173 395494001418 Ribonuclease PH; Region: RNase_PH_bact; cd11362 395494001419 hexamer interface [polypeptide binding]; other site 395494001420 active site 395494001421 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 395494001422 active site 395494001423 dimerization interface [polypeptide binding]; other site 395494001424 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 395494001425 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 395494001426 FeS/SAM binding site; other site 395494001427 HemN C-terminal domain; Region: HemN_C; pfam06969 395494001428 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 395494001429 S-adenosylmethionine binding site [chemical binding]; other site 395494001430 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 395494001431 ThiS interaction site; other site 395494001432 putative active site [active] 395494001433 tetramer interface [polypeptide binding]; other site 395494001434 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 395494001435 thiS-thiF/thiG interaction site; other site 395494001436 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395494001437 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395494001438 putative substrate translocation pore; other site 395494001439 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 395494001440 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 395494001441 putative active site [active] 395494001442 putative PHP Thumb interface [polypeptide binding]; other site 395494001443 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 395494001444 generic binding surface I; other site 395494001445 generic binding surface II; other site 395494001446 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395494001447 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395494001448 Walker A/P-loop; other site 395494001449 ATP binding site [chemical binding]; other site 395494001450 Q-loop/lid; other site 395494001451 ABC transporter signature motif; other site 395494001452 Walker B; other site 395494001453 D-loop; other site 395494001454 H-loop/switch region; other site 395494001455 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 395494001456 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395494001457 FtsX-like permease family; Region: FtsX; pfam02687 395494001458 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 395494001459 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 395494001460 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 395494001461 Dihaem cytochrome c; Region: DHC; pfam09626 395494001462 Domain of unknown function DUF59; Region: DUF59; pfam01883 395494001463 antiporter inner membrane protein; Provisional; Region: PRK11670 395494001464 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 395494001465 Walker A motif; other site 395494001466 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 395494001467 trimer interface [polypeptide binding]; other site 395494001468 active site 395494001469 putative global regulator; Reviewed; Region: PRK09559 395494001470 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 395494001471 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 395494001472 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 395494001473 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395494001474 catalytic residue [active] 395494001475 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 395494001476 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 395494001477 DNA-binding site [nucleotide binding]; DNA binding site 395494001478 RNA-binding motif; other site 395494001479 Flagellin N-methylase; Region: FliB; cl00497 395494001480 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 395494001481 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 395494001482 Peptidase family U32; Region: Peptidase_U32; pfam01136 395494001483 Collagenase; Region: DUF3656; pfam12392 395494001484 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 395494001485 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 395494001486 folate binding site [chemical binding]; other site 395494001487 NADP+ binding site [chemical binding]; other site 395494001488 thymidylate synthase; Reviewed; Region: thyA; PRK01827 395494001489 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 395494001490 dimerization interface [polypeptide binding]; other site 395494001491 active site 395494001492 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 395494001493 interface (dimer of trimers) [polypeptide binding]; other site 395494001494 Substrate-binding/catalytic site; other site 395494001495 Zn-binding sites [ion binding]; other site 395494001496 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 395494001497 SEC-C motif; Region: SEC-C; pfam02810 395494001498 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 395494001499 TPR motif; other site 395494001500 binding surface 395494001501 TPR repeat; Region: TPR_11; pfam13414 395494001502 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 395494001503 binding surface 395494001504 TPR motif; other site 395494001505 TPR repeat; Region: TPR_11; pfam13414 395494001506 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 395494001507 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 395494001508 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 395494001509 E3 interaction surface; other site 395494001510 lipoyl attachment site [posttranslational modification]; other site 395494001511 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 395494001512 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395494001513 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494001514 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395494001515 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 395494001516 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 395494001517 putative catalytic cysteine [active] 395494001518 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 395494001519 active site 395494001520 ribulose/triose binding site [chemical binding]; other site 395494001521 phosphate binding site [ion binding]; other site 395494001522 substrate (anthranilate) binding pocket [chemical binding]; other site 395494001523 product (indole) binding pocket [chemical binding]; other site 395494001524 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395494001525 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395494001526 trimer interface [polypeptide binding]; other site 395494001527 eyelet of channel; other site 395494001528 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 395494001529 diiron binding motif [ion binding]; other site 395494001530 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 395494001531 four helix bundle protein; Region: TIGR02436 395494001532 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 395494001533 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 395494001534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494001535 homodimer interface [polypeptide binding]; other site 395494001536 catalytic residue [active] 395494001537 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 395494001538 putative active site pocket [active] 395494001539 4-fold oligomerization interface [polypeptide binding]; other site 395494001540 metal binding residues [ion binding]; metal-binding site 395494001541 3-fold/trimer interface [polypeptide binding]; other site 395494001542 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 395494001543 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 395494001544 putative active site [active] 395494001545 oxyanion strand; other site 395494001546 catalytic triad [active] 395494001547 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 395494001548 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 395494001549 catalytic residues [active] 395494001550 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 395494001551 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 395494001552 substrate binding site [chemical binding]; other site 395494001553 glutamase interaction surface [polypeptide binding]; other site 395494001554 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 395494001555 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 395494001556 metal binding site [ion binding]; metal-binding site 395494001557 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 395494001558 nucleotide binding site/active site [active] 395494001559 HIT family signature motif; other site 395494001560 catalytic residue [active] 395494001561 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 395494001562 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 395494001563 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 395494001564 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395494001565 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 395494001566 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395494001567 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 395494001568 protein binding site [polypeptide binding]; other site 395494001569 Uncharacterized conserved protein [Function unknown]; Region: COG0327 395494001570 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 395494001571 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 395494001572 heme-binding residues [chemical binding]; other site 395494001573 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 395494001574 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 395494001575 molybdopterin cofactor binding site; other site 395494001576 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 395494001577 molybdopterin cofactor binding site; other site 395494001578 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 395494001579 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 395494001580 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 395494001581 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 395494001582 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 395494001583 stringent starvation protein A; Provisional; Region: sspA; PRK09481 395494001584 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395494001585 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 395494001586 dimer interface [polypeptide binding]; other site 395494001587 N-terminal domain interface [polypeptide binding]; other site 395494001588 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 395494001589 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 395494001590 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395494001591 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 395494001592 DNA binding residues [nucleotide binding] 395494001593 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 395494001594 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 395494001595 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 395494001596 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395494001597 Walker A/P-loop; other site 395494001598 ATP binding site [chemical binding]; other site 395494001599 Q-loop/lid; other site 395494001600 ABC transporter signature motif; other site 395494001601 Walker B; other site 395494001602 D-loop; other site 395494001603 H-loop/switch region; other site 395494001604 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 395494001605 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 395494001606 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 395494001607 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 395494001608 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 395494001609 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 395494001610 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 395494001611 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 395494001612 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 395494001613 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 395494001614 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 395494001615 S-adenosylmethionine binding site [chemical binding]; other site 395494001616 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 395494001617 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 395494001618 active site 395494001619 (T/H)XGH motif; other site 395494001620 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 395494001621 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 395494001622 Phosphoesterase family; Region: Phosphoesterase; pfam04185 395494001623 GAF domain; Region: GAF_3; pfam13492 395494001624 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494001625 Zn2+ binding site [ion binding]; other site 395494001626 Mg2+ binding site [ion binding]; other site 395494001627 Hemerythrin; Region: Hemerythrin; cd12107 395494001628 Fe binding site [ion binding]; other site 395494001629 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 395494001630 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 395494001631 DNA binding site [nucleotide binding] 395494001632 catalytic residue [active] 395494001633 H2TH interface [polypeptide binding]; other site 395494001634 putative catalytic residues [active] 395494001635 turnover-facilitating residue; other site 395494001636 intercalation triad [nucleotide binding]; other site 395494001637 8OG recognition residue [nucleotide binding]; other site 395494001638 putative reading head residues; other site 395494001639 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 395494001640 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 395494001641 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 395494001642 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 395494001643 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 395494001644 Walker A/P-loop; other site 395494001645 ATP binding site [chemical binding]; other site 395494001646 Q-loop/lid; other site 395494001647 ABC transporter signature motif; other site 395494001648 Walker B; other site 395494001649 D-loop; other site 395494001650 H-loop/switch region; other site 395494001651 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 395494001652 TPR motif; other site 395494001653 binding surface 395494001654 TPR repeat; Region: TPR_11; pfam13414 395494001655 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 395494001656 binding surface 395494001657 TPR motif; other site 395494001658 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 395494001659 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 395494001660 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 395494001661 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 395494001662 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 395494001663 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 395494001664 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 395494001665 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395494001666 active site 395494001667 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 395494001668 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 395494001669 5S rRNA interface [nucleotide binding]; other site 395494001670 CTC domain interface [polypeptide binding]; other site 395494001671 L16 interface [polypeptide binding]; other site 395494001672 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 395494001673 putative active site [active] 395494001674 catalytic residue [active] 395494001675 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 395494001676 active site 395494001677 catalytic triad [active] 395494001678 oxyanion hole [active] 395494001679 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 395494001680 active site 395494001681 catalytic triad [active] 395494001682 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 395494001683 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395494001684 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395494001685 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 395494001686 TPR motif; other site 395494001687 binding surface 395494001688 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 395494001689 binding surface 395494001690 TPR motif; other site 395494001691 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 395494001692 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 395494001693 endo-1,4-D-glucanase; Provisional; Region: PRK11097 395494001694 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 395494001695 active site 395494001696 catalytic triad [active] 395494001697 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 395494001698 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 395494001699 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395494001700 putative substrate translocation pore; other site 395494001701 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 395494001702 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 395494001703 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 395494001704 substrate binding site [chemical binding]; other site 395494001705 ligand binding site [chemical binding]; other site 395494001706 Predicted small secreted protein [Function unknown]; Region: COG5510 395494001707 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 395494001708 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 395494001709 substrate binding site [chemical binding]; other site 395494001710 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 395494001711 tartrate dehydrogenase; Region: TTC; TIGR02089 395494001712 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 395494001713 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 395494001714 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395494001715 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 395494001716 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 395494001717 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 395494001718 dimerization interface 3.5A [polypeptide binding]; other site 395494001719 active site 395494001720 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 395494001721 active site 395494001722 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 395494001723 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 395494001724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494001725 catalytic residue [active] 395494001726 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 395494001727 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 395494001728 substrate binding site [chemical binding]; other site 395494001729 active site 395494001730 catalytic residues [active] 395494001731 heterodimer interface [polypeptide binding]; other site 395494001732 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 395494001733 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 395494001734 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 395494001735 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494001736 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395494001737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 395494001738 Sporulation related domain; Region: SPOR; pfam05036 395494001739 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 395494001740 Colicin V production protein; Region: Colicin_V; pfam02674 395494001741 amidophosphoribosyltransferase; Provisional; Region: PRK09246 395494001742 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 395494001743 active site 395494001744 tetramer interface [polypeptide binding]; other site 395494001745 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395494001746 active site 395494001747 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 395494001748 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 395494001749 homodimer interface [polypeptide binding]; other site 395494001750 substrate-cofactor binding pocket; other site 395494001751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494001752 catalytic residue [active] 395494001753 Competence-damaged protein; Region: CinA; cl00666 395494001754 recombinase A; Provisional; Region: recA; PRK09354 395494001755 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 395494001756 hexamer interface [polypeptide binding]; other site 395494001757 Walker A motif; other site 395494001758 ATP binding site [chemical binding]; other site 395494001759 Walker B motif; other site 395494001760 recombination regulator RecX; Reviewed; Region: recX; PRK00117 395494001761 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 395494001762 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 395494001763 motif 1; other site 395494001764 active site 395494001765 motif 2; other site 395494001766 motif 3; other site 395494001767 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 395494001768 DHHA1 domain; Region: DHHA1; pfam02272 395494001769 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 395494001770 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 395494001771 active site 395494001772 substrate binding site [chemical binding]; other site 395494001773 metal binding site [ion binding]; metal-binding site 395494001774 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494001775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001776 active site 395494001777 phosphorylation site [posttranslational modification] 395494001778 intermolecular recognition site; other site 395494001779 dimerization interface [polypeptide binding]; other site 395494001780 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 395494001781 PAS fold; Region: PAS_3; pfam08447 395494001782 putative active site [active] 395494001783 heme pocket [chemical binding]; other site 395494001784 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494001785 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494001786 metal binding site [ion binding]; metal-binding site 395494001787 active site 395494001788 I-site; other site 395494001789 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395494001790 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 395494001791 putative active site [active] 395494001792 Zinc-finger domain; Region: zf-CHCC; cl01821 395494001793 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 395494001794 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 395494001795 homodimer interface [polypeptide binding]; other site 395494001796 substrate-cofactor binding pocket; other site 395494001797 catalytic residue [active] 395494001798 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 395494001799 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 395494001800 DNA binding residues [nucleotide binding] 395494001801 dimerization interface [polypeptide binding]; other site 395494001802 Response regulator receiver domain; Region: Response_reg; pfam00072 395494001803 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001804 active site 395494001805 phosphorylation site [posttranslational modification] 395494001806 intermolecular recognition site; other site 395494001807 dimerization interface [polypeptide binding]; other site 395494001808 Response regulator receiver domain; Region: Response_reg; pfam00072 395494001809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001810 active site 395494001811 phosphorylation site [posttranslational modification] 395494001812 intermolecular recognition site; other site 395494001813 dimerization interface [polypeptide binding]; other site 395494001814 Response regulator receiver domain; Region: Response_reg; pfam00072 395494001815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001816 active site 395494001817 phosphorylation site [posttranslational modification] 395494001818 intermolecular recognition site; other site 395494001819 dimerization interface [polypeptide binding]; other site 395494001820 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 395494001821 Response regulator receiver domain; Region: Response_reg; pfam00072 395494001822 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001823 active site 395494001824 phosphorylation site [posttranslational modification] 395494001825 intermolecular recognition site; other site 395494001826 dimerization interface [polypeptide binding]; other site 395494001827 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 395494001828 S-adenosylmethionine binding site [chemical binding]; other site 395494001829 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 395494001830 putative substrate binding site [chemical binding]; other site 395494001831 putative ATP binding site [chemical binding]; other site 395494001832 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 395494001833 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 395494001834 dimerization interface [polypeptide binding]; other site 395494001835 ATP binding site [chemical binding]; other site 395494001836 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 395494001837 dimerization interface [polypeptide binding]; other site 395494001838 ATP binding site [chemical binding]; other site 395494001839 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 395494001840 putative active site [active] 395494001841 catalytic triad [active] 395494001842 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 395494001843 active site 395494001844 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 395494001845 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 395494001846 Tetramer interface [polypeptide binding]; other site 395494001847 active site 395494001848 FMN-binding site [chemical binding]; other site 395494001849 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395494001850 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 395494001851 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 395494001852 Peptidase family M48; Region: Peptidase_M48; pfam01435 395494001853 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 395494001854 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 395494001855 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 395494001856 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395494001857 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 395494001858 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 395494001859 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 395494001860 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 395494001861 Walker A/P-loop; other site 395494001862 ATP binding site [chemical binding]; other site 395494001863 Q-loop/lid; other site 395494001864 ABC transporter signature motif; other site 395494001865 Walker B; other site 395494001866 D-loop; other site 395494001867 H-loop/switch region; other site 395494001868 Permease; Region: Permease; cl00510 395494001869 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 395494001870 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 395494001871 mce related protein; Region: MCE; pfam02470 395494001872 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 395494001873 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 395494001874 anti sigma factor interaction site; other site 395494001875 regulatory phosphorylation site [posttranslational modification]; other site 395494001876 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 395494001877 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 395494001878 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 395494001879 hinge; other site 395494001880 active site 395494001881 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 395494001882 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 395494001883 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 395494001884 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 395494001885 NAD binding site [chemical binding]; other site 395494001886 dimerization interface [polypeptide binding]; other site 395494001887 product binding site; other site 395494001888 substrate binding site [chemical binding]; other site 395494001889 zinc binding site [ion binding]; other site 395494001890 catalytic residues [active] 395494001891 elongation factor Tu; Reviewed; Region: PRK00049 395494001892 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 395494001893 G1 box; other site 395494001894 GEF interaction site [polypeptide binding]; other site 395494001895 GTP/Mg2+ binding site [chemical binding]; other site 395494001896 Switch I region; other site 395494001897 G2 box; other site 395494001898 G3 box; other site 395494001899 Switch II region; other site 395494001900 G4 box; other site 395494001901 G5 box; other site 395494001902 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 395494001903 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 395494001904 Antibiotic Binding Site [chemical binding]; other site 395494001905 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 395494001906 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 395494001907 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 395494001908 putative homodimer interface [polypeptide binding]; other site 395494001909 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 395494001910 heterodimer interface [polypeptide binding]; other site 395494001911 homodimer interface [polypeptide binding]; other site 395494001912 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 395494001913 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 395494001914 23S rRNA interface [nucleotide binding]; other site 395494001915 L7/L12 interface [polypeptide binding]; other site 395494001916 putative thiostrepton binding site; other site 395494001917 L25 interface [polypeptide binding]; other site 395494001918 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 395494001919 mRNA/rRNA interface [nucleotide binding]; other site 395494001920 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 395494001921 23S rRNA interface [nucleotide binding]; other site 395494001922 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 395494001923 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 395494001924 core dimer interface [polypeptide binding]; other site 395494001925 peripheral dimer interface [polypeptide binding]; other site 395494001926 L10 interface [polypeptide binding]; other site 395494001927 L11 interface [polypeptide binding]; other site 395494001928 putative EF-Tu interaction site [polypeptide binding]; other site 395494001929 putative EF-G interaction site [polypeptide binding]; other site 395494001930 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 395494001931 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 395494001932 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 395494001933 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 395494001934 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 395494001935 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 395494001936 RPB3 interaction site [polypeptide binding]; other site 395494001937 RPB1 interaction site [polypeptide binding]; other site 395494001938 RPB11 interaction site [polypeptide binding]; other site 395494001939 RPB10 interaction site [polypeptide binding]; other site 395494001940 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 395494001941 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 395494001942 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 395494001943 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 395494001944 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 395494001945 metal binding site [ion binding]; metal-binding site 395494001946 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 395494001947 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 395494001948 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 395494001949 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 395494001950 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 395494001951 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 395494001952 DNA binding site [nucleotide binding] 395494001953 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 395494001954 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 395494001955 S17 interaction site [polypeptide binding]; other site 395494001956 S8 interaction site; other site 395494001957 16S rRNA interaction site [nucleotide binding]; other site 395494001958 streptomycin interaction site [chemical binding]; other site 395494001959 23S rRNA interaction site [nucleotide binding]; other site 395494001960 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 395494001961 30S ribosomal protein S7; Validated; Region: PRK05302 395494001962 elongation factor G; Reviewed; Region: PRK00007 395494001963 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 395494001964 G1 box; other site 395494001965 putative GEF interaction site [polypeptide binding]; other site 395494001966 GTP/Mg2+ binding site [chemical binding]; other site 395494001967 Switch I region; other site 395494001968 G2 box; other site 395494001969 G3 box; other site 395494001970 Switch II region; other site 395494001971 G4 box; other site 395494001972 G5 box; other site 395494001973 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 395494001974 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 395494001975 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 395494001976 elongation factor Tu; Reviewed; Region: PRK00049 395494001977 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 395494001978 G1 box; other site 395494001979 GEF interaction site [polypeptide binding]; other site 395494001980 GTP/Mg2+ binding site [chemical binding]; other site 395494001981 Switch I region; other site 395494001982 G2 box; other site 395494001983 G3 box; other site 395494001984 Switch II region; other site 395494001985 G4 box; other site 395494001986 G5 box; other site 395494001987 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 395494001988 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 395494001989 Antibiotic Binding Site [chemical binding]; other site 395494001990 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 395494001991 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 395494001992 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 395494001993 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 395494001994 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 395494001995 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 395494001996 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 395494001997 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 395494001998 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 395494001999 putative translocon binding site; other site 395494002000 protein-rRNA interface [nucleotide binding]; other site 395494002001 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 395494002002 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 395494002003 G-X-X-G motif; other site 395494002004 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 395494002005 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 395494002006 23S rRNA interface [nucleotide binding]; other site 395494002007 5S rRNA interface [nucleotide binding]; other site 395494002008 putative antibiotic binding site [chemical binding]; other site 395494002009 L25 interface [polypeptide binding]; other site 395494002010 L27 interface [polypeptide binding]; other site 395494002011 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 395494002012 putative translocon interaction site; other site 395494002013 signal recognition particle (SRP54) interaction site; other site 395494002014 L23 interface [polypeptide binding]; other site 395494002015 trigger factor interaction site; other site 395494002016 23S rRNA interface [nucleotide binding]; other site 395494002017 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 395494002018 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 395494002019 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 395494002020 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 395494002021 RNA binding site [nucleotide binding]; other site 395494002022 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 395494002023 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 395494002024 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 395494002025 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 395494002026 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 395494002027 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 395494002028 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 395494002029 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 395494002030 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 395494002031 5S rRNA interface [nucleotide binding]; other site 395494002032 23S rRNA interface [nucleotide binding]; other site 395494002033 L5 interface [polypeptide binding]; other site 395494002034 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 395494002035 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 395494002036 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 395494002037 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 395494002038 23S rRNA binding site [nucleotide binding]; other site 395494002039 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 395494002040 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 395494002041 SecY translocase; Region: SecY; pfam00344 395494002042 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 395494002043 rRNA binding site [nucleotide binding]; other site 395494002044 predicted 30S ribosome binding site; other site 395494002045 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 395494002046 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 395494002047 30S ribosomal protein S13; Region: bact_S13; TIGR03631 395494002048 30S ribosomal protein S11; Validated; Region: PRK05309 395494002049 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 395494002050 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 395494002051 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 395494002052 RNA binding surface [nucleotide binding]; other site 395494002053 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 395494002054 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 395494002055 alphaNTD homodimer interface [polypeptide binding]; other site 395494002056 alphaNTD - beta interaction site [polypeptide binding]; other site 395494002057 alphaNTD - beta' interaction site [polypeptide binding]; other site 395494002058 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 395494002059 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 395494002060 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 395494002061 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 395494002062 dimer interface [polypeptide binding]; other site 395494002063 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494002064 catalytic residue [active] 395494002065 GTP-binding protein YchF; Reviewed; Region: PRK09601 395494002066 YchF GTPase; Region: YchF; cd01900 395494002067 G1 box; other site 395494002068 GTP/Mg2+ binding site [chemical binding]; other site 395494002069 Switch I region; other site 395494002070 G2 box; other site 395494002071 Switch II region; other site 395494002072 G3 box; other site 395494002073 G4 box; other site 395494002074 G5 box; other site 395494002075 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 395494002076 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 395494002077 Biotin operon repressor [Transcription]; Region: BirA; COG1654 395494002078 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 395494002079 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 395494002080 Type III pantothenate kinase; Region: Pan_kinase; cl17198 395494002081 Sporulation related domain; Region: SPOR; pfam05036 395494002082 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 395494002083 dimerization interface [polypeptide binding]; other site 395494002084 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494002085 dimer interface [polypeptide binding]; other site 395494002086 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395494002087 putative CheW interface [polypeptide binding]; other site 395494002088 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 395494002089 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 395494002090 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 395494002091 FeS/SAM binding site; other site 395494002092 TRAM domain; Region: TRAM; pfam01938 395494002093 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 395494002094 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 395494002095 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 395494002096 Transporter associated domain; Region: CorC_HlyC; smart01091 395494002097 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 395494002098 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 395494002099 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395494002100 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395494002101 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 395494002102 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 395494002103 FeS/SAM binding site; other site 395494002104 Pyruvate formate lyase 1; Region: PFL1; cd01678 395494002105 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 395494002106 coenzyme A binding site [chemical binding]; other site 395494002107 active site 395494002108 catalytic residues [active] 395494002109 glycine loop; other site 395494002110 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395494002111 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 395494002112 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 395494002113 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 395494002114 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 395494002115 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 395494002116 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 395494002117 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 395494002118 ATP binding site [chemical binding]; other site 395494002119 putative Mg++ binding site [ion binding]; other site 395494002120 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 395494002121 nucleotide binding region [chemical binding]; other site 395494002122 ATP-binding site [chemical binding]; other site 395494002123 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 395494002124 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 395494002125 substrate binding site; other site 395494002126 dimer interface; other site 395494002127 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 395494002128 homotrimer interaction site [polypeptide binding]; other site 395494002129 zinc binding site [ion binding]; other site 395494002130 CDP-binding sites; other site 395494002131 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 395494002132 Glycoprotease family; Region: Peptidase_M22; pfam00814 395494002133 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 395494002134 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 395494002135 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 395494002136 Fe-S cluster binding site [ion binding]; other site 395494002137 active site 395494002138 lysophospholipid transporter LplT; Provisional; Region: PRK11195 395494002139 alanine racemase; Reviewed; Region: dadX; PRK03646 395494002140 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 395494002141 active site 395494002142 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395494002143 substrate binding site [chemical binding]; other site 395494002144 catalytic residues [active] 395494002145 dimer interface [polypeptide binding]; other site 395494002146 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 395494002147 Flagellar protein YcgR; Region: YcgR_2; pfam12945 395494002148 PilZ domain; Region: PilZ; pfam07238 395494002149 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 395494002150 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395494002151 active site 395494002152 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 395494002153 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 395494002154 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 395494002155 intersubunit interface [polypeptide binding]; other site 395494002156 active site 395494002157 Zn2+ binding site [ion binding]; other site 395494002158 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 395494002159 PemK-like protein; Region: PemK; pfam02452 395494002160 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 395494002161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 395494002162 elongation factor P; Validated; Region: PRK00529 395494002163 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 395494002164 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 395494002165 RNA binding site [nucleotide binding]; other site 395494002166 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 395494002167 RNA binding site [nucleotide binding]; other site 395494002168 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 395494002169 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 395494002170 ligand binding site; other site 395494002171 oligomer interface; other site 395494002172 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 395494002173 dimer interface [polypeptide binding]; other site 395494002174 N-terminal domain interface [polypeptide binding]; other site 395494002175 sulfate 1 binding site; other site 395494002176 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 395494002177 hypothetical protein; Provisional; Region: PRK09256 395494002178 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 395494002179 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 395494002180 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 395494002181 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 395494002182 hypothetical protein; Provisional; Region: PRK12378 395494002183 HDOD domain; Region: HDOD; pfam08668 395494002184 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395494002185 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395494002186 putative substrate translocation pore; other site 395494002187 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 395494002188 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 395494002189 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 395494002190 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 395494002191 active site 395494002192 DNA binding site [nucleotide binding] 395494002193 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 395494002194 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 395494002195 Catalytic site [active] 395494002196 LexA repressor; Provisional; Region: PRK12423 395494002197 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 395494002198 Catalytic site [active] 395494002199 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395494002200 cyclase homology domain; Region: CHD; cd07302 395494002201 nucleotidyl binding site; other site 395494002202 metal binding site [ion binding]; metal-binding site 395494002203 dimer interface [polypeptide binding]; other site 395494002204 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 395494002205 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 395494002206 MutS domain I; Region: MutS_I; pfam01624 395494002207 MutS domain II; Region: MutS_II; pfam05188 395494002208 MutS domain III; Region: MutS_III; pfam05192 395494002209 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 395494002210 Walker A/P-loop; other site 395494002211 ATP binding site [chemical binding]; other site 395494002212 Q-loop/lid; other site 395494002213 ABC transporter signature motif; other site 395494002214 Walker B; other site 395494002215 D-loop; other site 395494002216 H-loop/switch region; other site 395494002217 Hemerythrin; Region: Hemerythrin; cd12107 395494002218 Fe binding site [ion binding]; other site 395494002219 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 395494002220 PAS domain; Region: PAS_9; pfam13426 395494002221 putative active site [active] 395494002222 heme pocket [chemical binding]; other site 395494002223 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494002224 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494002225 metal binding site [ion binding]; metal-binding site 395494002226 active site 395494002227 I-site; other site 395494002228 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 395494002229 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 395494002230 active site 395494002231 dimerization interface [polypeptide binding]; other site 395494002232 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 395494002233 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 395494002234 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 395494002235 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 395494002236 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 395494002237 trimer interface [polypeptide binding]; other site 395494002238 active site 395494002239 substrate binding site [chemical binding]; other site 395494002240 CoA binding site [chemical binding]; other site 395494002241 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 395494002242 Rrf2 family protein; Region: rrf2_super; TIGR00738 395494002243 cysteine desulfurase; Provisional; Region: PRK14012 395494002244 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 395494002245 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395494002246 catalytic residue [active] 395494002247 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 395494002248 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 395494002249 trimerization site [polypeptide binding]; other site 395494002250 active site 395494002251 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 395494002252 co-chaperone HscB; Provisional; Region: hscB; PRK03578 395494002253 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 395494002254 HSP70 interaction site [polypeptide binding]; other site 395494002255 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 395494002256 chaperone protein HscA; Provisional; Region: hscA; PRK05183 395494002257 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 395494002258 nucleotide binding site [chemical binding]; other site 395494002259 putative NEF/HSP70 interaction site [polypeptide binding]; other site 395494002260 SBD interface [polypeptide binding]; other site 395494002261 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 395494002262 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 395494002263 catalytic loop [active] 395494002264 iron binding site [ion binding]; other site 395494002265 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 395494002266 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 395494002267 excinuclease ABC subunit B; Provisional; Region: PRK05298 395494002268 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 395494002269 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 395494002270 ATP-binding site [chemical binding]; other site 395494002271 ATP binding site [chemical binding]; other site 395494002272 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 395494002273 nucleotide binding region [chemical binding]; other site 395494002274 ATP-binding site [chemical binding]; other site 395494002275 Ultra-violet resistance protein B; Region: UvrB; pfam12344 395494002276 UvrB/uvrC motif; Region: UVR; pfam02151 395494002277 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494002278 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494002279 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494002280 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 395494002281 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 395494002282 Domain of unknown function (DUF336); Region: DUF336; cl01249 395494002283 adenylate kinase; Reviewed; Region: adk; PRK00279 395494002284 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 395494002285 AMP-binding site [chemical binding]; other site 395494002286 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 395494002287 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 395494002288 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 395494002289 Ligand binding site; other site 395494002290 oligomer interface; other site 395494002291 Uncharacterized conserved protein [Function unknown]; Region: COG2835 395494002292 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 395494002293 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 395494002294 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 395494002295 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 395494002296 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 395494002297 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 395494002298 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 395494002299 generic binding surface II; other site 395494002300 generic binding surface I; other site 395494002301 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 395494002302 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 395494002303 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 395494002304 Walker A motif; other site 395494002305 ATP binding site [chemical binding]; other site 395494002306 Walker B motif; other site 395494002307 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 395494002308 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395494002309 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 395494002310 S-adenosylmethionine binding site [chemical binding]; other site 395494002311 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395494002312 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 395494002313 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 395494002314 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 395494002315 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 395494002316 inhibitor-cofactor binding pocket; inhibition site 395494002317 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494002318 catalytic residue [active] 395494002319 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 395494002320 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 395494002321 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 395494002322 Ligand binding site; other site 395494002323 Putative Catalytic site; other site 395494002324 DXD motif; other site 395494002325 putative formyltransferase; Provisional; Region: PRK06988 395494002326 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 395494002327 active site 395494002328 substrate binding site [chemical binding]; other site 395494002329 cosubstrate binding site; other site 395494002330 catalytic site [active] 395494002331 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 395494002332 active site 395494002333 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 395494002334 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 395494002335 NAD binding site [chemical binding]; other site 395494002336 substrate binding site [chemical binding]; other site 395494002337 active site 395494002338 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 395494002339 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 395494002340 putative active site [active] 395494002341 putative catalytic site [active] 395494002342 putative Zn binding site [ion binding]; other site 395494002343 HDOD domain; Region: HDOD; pfam08668 395494002344 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 395494002345 active site 395494002346 catalytic residues [active] 395494002347 DNA binding site [nucleotide binding] 395494002348 Int/Topo IB signature motif; other site 395494002349 Nuclease-related domain; Region: NERD; pfam08378 395494002350 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 395494002351 active site 395494002352 ATP binding site [chemical binding]; other site 395494002353 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 395494002354 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494002355 activation loop (A-loop); other site 395494002356 AAA domain; Region: AAA_11; pfam13086 395494002357 Part of AAA domain; Region: AAA_19; pfam13245 395494002358 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 395494002359 AAA domain; Region: AAA_30; pfam13604 395494002360 AAA domain; Region: AAA_12; pfam13087 395494002361 AAA domain; Region: AAA_18; pfam13238 395494002362 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 395494002363 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 395494002364 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 395494002365 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 395494002366 nucleotide binding region [chemical binding]; other site 395494002367 ATP-binding site [chemical binding]; other site 395494002368 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 395494002369 ATP binding site [chemical binding]; other site 395494002370 Mg2+ binding site [ion binding]; other site 395494002371 G-X-G motif; other site 395494002372 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 395494002373 Active Sites [active] 395494002374 DNA primase; Validated; Region: dnaG; PRK05667 395494002375 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 395494002376 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 395494002377 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 395494002378 active site 395494002379 interdomain interaction site; other site 395494002380 putative metal-binding site [ion binding]; other site 395494002381 nucleotide binding site [chemical binding]; other site 395494002382 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 395494002383 domain I; other site 395494002384 DNA binding groove [nucleotide binding] 395494002385 phosphate binding site [ion binding]; other site 395494002386 domain II; other site 395494002387 domain III; other site 395494002388 nucleotide binding site [chemical binding]; other site 395494002389 catalytic site [active] 395494002390 domain IV; other site 395494002391 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395494002392 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 395494002393 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 395494002394 Walker A motif; other site 395494002395 ATP binding site [chemical binding]; other site 395494002396 Walker B motif; other site 395494002397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395494002398 Integrase core domain; Region: rve; pfam00665 395494002399 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395494002400 Outer membrane efflux protein; Region: OEP; pfam02321 395494002401 Outer membrane efflux protein; Region: OEP; pfam02321 395494002402 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 395494002403 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494002404 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 395494002405 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494002406 Protein of unknown function, DUF; Region: DUF411; cl01142 395494002407 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 395494002408 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 395494002409 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494002410 Zn2+ binding site [ion binding]; other site 395494002411 Mg2+ binding site [ion binding]; other site 395494002412 conserved hypothetical protein; Region: TIGR02270 395494002413 YHS domain; Region: YHS; pfam04945 395494002414 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 395494002415 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494002416 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 395494002417 motif II; other site 395494002418 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 395494002419 YHS domain; Region: YHS; pfam04945 395494002420 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 395494002421 IHF dimer interface [polypeptide binding]; other site 395494002422 IHF - DNA interface [nucleotide binding]; other site 395494002423 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 395494002424 CHC2 zinc finger; Region: zf-CHC2; cl17510 395494002425 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 395494002426 active site 395494002427 metal binding site [ion binding]; metal-binding site 395494002428 interdomain interaction site; other site 395494002429 Domain of unknown function (DUF927); Region: DUF927; pfam06048 395494002430 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 395494002431 YgiT-type zinc finger domain; Region: YgiT_finger; TIGR03831 395494002432 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 395494002433 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 395494002434 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 395494002435 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 395494002436 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 395494002437 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 395494002438 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 395494002439 Transposase; Region: HTH_Tnp_1; pfam01527 395494002440 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395494002441 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 395494002442 active site 395494002443 DNA binding site [nucleotide binding] 395494002444 Int/Topo IB signature motif; other site 395494002445 Predicted transcriptional regulator [Transcription]; Region: COG3905 395494002446 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 395494002447 S4 domain; Region: S4_2; pfam13275 395494002448 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395494002449 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 395494002450 ligand binding site [chemical binding]; other site 395494002451 flexible hinge region; other site 395494002452 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 395494002453 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 395494002454 salt bridge; other site 395494002455 non-specific DNA binding site [nucleotide binding]; other site 395494002456 sequence-specific DNA binding site [nucleotide binding]; other site 395494002457 Nuclease-related domain; Region: NERD; pfam08378 395494002458 GIY-YIG domain of uncharacterized hypothetical protein found in phycodnavirus PBCV-1 DNA virus, T. thermophila Tlr element eoncoding protein Tlr8p, and similar proteins found in bacteria; Region: GIY-YIG_HE_Tlr8p_PBC-V_like; cd10443 395494002459 GIY-YIG motif/motif A; other site 395494002460 putative active site [active] 395494002461 putative metal binding site [ion binding]; other site 395494002462 HDOD domain; Region: HDOD; pfam08668 395494002463 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494002464 Zn2+ binding site [ion binding]; other site 395494002465 Mg2+ binding site [ion binding]; other site 395494002466 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 395494002467 dimer interface [polypeptide binding]; other site 395494002468 phosphorylation site [posttranslational modification] 395494002469 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002470 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002471 active site 395494002472 phosphorylation site [posttranslational modification] 395494002473 intermolecular recognition site; other site 395494002474 dimerization interface [polypeptide binding]; other site 395494002475 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 395494002476 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002477 active site 395494002478 phosphorylation site [posttranslational modification] 395494002479 intermolecular recognition site; other site 395494002480 dimerization interface [polypeptide binding]; other site 395494002481 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494002482 Zn2+ binding site [ion binding]; other site 395494002483 Mg2+ binding site [ion binding]; other site 395494002484 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395494002485 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494002486 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 395494002487 dimerization interface [polypeptide binding]; other site 395494002488 PAS fold; Region: PAS; pfam00989 395494002489 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 395494002490 putative active site [active] 395494002491 heme pocket [chemical binding]; other site 395494002492 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 395494002493 dimer interface [polypeptide binding]; other site 395494002494 phosphorylation site [posttranslational modification] 395494002495 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 395494002496 ATP binding site [chemical binding]; other site 395494002497 Mg2+ binding site [ion binding]; other site 395494002498 G-X-G motif; other site 395494002499 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494002500 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002501 active site 395494002502 phosphorylation site [posttranslational modification] 395494002503 intermolecular recognition site; other site 395494002504 dimerization interface [polypeptide binding]; other site 395494002505 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002506 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002507 active site 395494002508 phosphorylation site [posttranslational modification] 395494002509 intermolecular recognition site; other site 395494002510 dimerization interface [polypeptide binding]; other site 395494002511 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 395494002512 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494002513 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 395494002514 putative active site [active] 395494002515 heme pocket [chemical binding]; other site 395494002516 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 395494002517 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494002518 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 395494002519 dimer interface [polypeptide binding]; other site 395494002520 phosphorylation site [posttranslational modification] 395494002521 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 395494002522 ATP binding site [chemical binding]; other site 395494002523 Mg2+ binding site [ion binding]; other site 395494002524 G-X-G motif; other site 395494002525 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 395494002526 dimerization interface [polypeptide binding]; other site 395494002527 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494002528 PAS domain; Region: PAS; smart00091 395494002529 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 395494002530 dimer interface [polypeptide binding]; other site 395494002531 phosphorylation site [posttranslational modification] 395494002532 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 395494002533 ATP binding site [chemical binding]; other site 395494002534 Mg2+ binding site [ion binding]; other site 395494002535 G-X-G motif; other site 395494002536 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395494002537 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 395494002538 PAS domain; Region: PAS_9; pfam13426 395494002539 putative active site [active] 395494002540 heme pocket [chemical binding]; other site 395494002541 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494002542 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494002543 metal binding site [ion binding]; metal-binding site 395494002544 active site 395494002545 I-site; other site 395494002546 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002547 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002548 active site 395494002549 phosphorylation site [posttranslational modification] 395494002550 intermolecular recognition site; other site 395494002551 dimerization interface [polypeptide binding]; other site 395494002552 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 395494002553 DNA binding residues [nucleotide binding] 395494002554 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002555 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002556 active site 395494002557 phosphorylation site [posttranslational modification] 395494002558 intermolecular recognition site; other site 395494002559 dimerization interface [polypeptide binding]; other site 395494002560 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002561 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002562 active site 395494002563 phosphorylation site [posttranslational modification] 395494002564 intermolecular recognition site; other site 395494002565 dimerization interface [polypeptide binding]; other site 395494002566 PAS domain S-box; Region: sensory_box; TIGR00229 395494002567 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 395494002568 putative active site [active] 395494002569 heme pocket [chemical binding]; other site 395494002570 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494002571 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 395494002572 putative active site [active] 395494002573 heme pocket [chemical binding]; other site 395494002574 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 395494002575 dimer interface [polypeptide binding]; other site 395494002576 phosphorylation site [posttranslational modification] 395494002577 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 395494002578 ATP binding site [chemical binding]; other site 395494002579 Mg2+ binding site [ion binding]; other site 395494002580 G-X-G motif; other site 395494002581 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002582 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002583 active site 395494002584 phosphorylation site [posttranslational modification] 395494002585 intermolecular recognition site; other site 395494002586 dimerization interface [polypeptide binding]; other site 395494002587 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 395494002588 putative binding surface; other site 395494002589 active site 395494002590 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002591 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002592 active site 395494002593 phosphorylation site [posttranslational modification] 395494002594 intermolecular recognition site; other site 395494002595 dimerization interface [polypeptide binding]; other site 395494002596 FIST N domain; Region: FIST; pfam08495 395494002597 Uncharacterized conserved protein [Function unknown]; Region: COG3287 395494002598 FIST C domain; Region: FIST_C; pfam10442 395494002599 PAS fold; Region: PAS_4; pfam08448 395494002600 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 395494002601 putative active site [active] 395494002602 heme pocket [chemical binding]; other site 395494002603 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494002604 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 395494002605 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494002606 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494002607 metal binding site [ion binding]; metal-binding site 395494002608 active site 395494002609 I-site; other site 395494002610 Transcriptional regulator; Region: Rrf2; cl17282 395494002611 Rrf2 family protein; Region: rrf2_super; TIGR00738 395494002612 Cytochrome c; Region: Cytochrom_C; pfam00034 395494002613 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 395494002614 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 395494002615 Low-spin heme binding site [chemical binding]; other site 395494002616 D-pathway; other site 395494002617 Putative water exit pathway; other site 395494002618 Binuclear center (active site) [active] 395494002619 K-pathway; other site 395494002620 Putative proton exit pathway; other site 395494002621 NnrS protein; Region: NnrS; pfam05940 395494002622 Nitrate and nitrite sensing; Region: NIT; pfam08376 395494002623 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494002624 dimer interface [polypeptide binding]; other site 395494002625 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395494002626 putative CheW interface [polypeptide binding]; other site 395494002627 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494002628 Zn2+ binding site [ion binding]; other site 395494002629 Mg2+ binding site [ion binding]; other site 395494002630 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 395494002631 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 395494002632 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494002633 Zn2+ binding site [ion binding]; other site 395494002634 Mg2+ binding site [ion binding]; other site 395494002635 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 395494002636 PAS domain; Region: PAS_9; pfam13426 395494002637 putative active site [active] 395494002638 heme pocket [chemical binding]; other site 395494002639 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494002640 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494002641 dimer interface [polypeptide binding]; other site 395494002642 putative CheW interface [polypeptide binding]; other site 395494002643 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 395494002644 DNA binding residues [nucleotide binding] 395494002645 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002646 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002647 active site 395494002648 phosphorylation site [posttranslational modification] 395494002649 intermolecular recognition site; other site 395494002650 dimerization interface [polypeptide binding]; other site 395494002651 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395494002652 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395494002653 dimer interface [polypeptide binding]; other site 395494002654 conserved gate region; other site 395494002655 putative PBP binding loops; other site 395494002656 ABC-ATPase subunit interface; other site 395494002657 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395494002658 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395494002659 Walker A/P-loop; other site 395494002660 ATP binding site [chemical binding]; other site 395494002661 Q-loop/lid; other site 395494002662 ABC transporter signature motif; other site 395494002663 Walker B; other site 395494002664 D-loop; other site 395494002665 H-loop/switch region; other site 395494002666 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 395494002667 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 395494002668 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 395494002669 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 395494002670 urea carboxylase; Region: urea_carbox; TIGR02712 395494002671 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395494002672 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395494002673 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 395494002674 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 395494002675 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 395494002676 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 395494002677 carboxyltransferase (CT) interaction site; other site 395494002678 biotinylation site [posttranslational modification]; other site 395494002679 allophanate hydrolase; Provisional; Region: PRK08186 395494002680 Amidase; Region: Amidase; cl11426 395494002681 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 395494002682 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 395494002683 NMT1/THI5 like; Region: NMT1; pfam09084 395494002684 PilZ domain; Region: PilZ; pfam07238 395494002685 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 395494002686 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 395494002687 cysteine synthase B; Region: cysM; TIGR01138 395494002688 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 395494002689 dimer interface [polypeptide binding]; other site 395494002690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494002691 catalytic residue [active] 395494002692 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 395494002693 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395494002694 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 395494002695 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395494002696 AMIN domain; Region: AMIN; pfam11741 395494002697 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 395494002698 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 395494002699 active site 395494002700 metal binding site [ion binding]; metal-binding site 395494002701 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 395494002702 epoxyqueuosine reductase; Region: TIGR00276 395494002703 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 395494002704 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 395494002705 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 395494002706 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494002707 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 395494002708 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 395494002709 active site 395494002710 motif I; other site 395494002711 motif II; other site 395494002712 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 395494002713 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 395494002714 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 395494002715 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 395494002716 Domain of unknown function (DUF389); Region: DUF389; pfam04087 395494002717 NHAD transporter family protein; Provisional; Region: PLN00137 395494002718 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 395494002719 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 395494002720 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 395494002721 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 395494002722 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 395494002723 motif II; other site 395494002724 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 395494002725 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 395494002726 tandem repeat interface [polypeptide binding]; other site 395494002727 oligomer interface [polypeptide binding]; other site 395494002728 active site residues [active] 395494002729 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 395494002730 active site 395494002731 catalytic triad [active] 395494002732 oxyanion hole [active] 395494002733 switch loop; other site 395494002734 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395494002735 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 395494002736 Walker A/P-loop; other site 395494002737 ATP binding site [chemical binding]; other site 395494002738 Q-loop/lid; other site 395494002739 ABC transporter signature motif; other site 395494002740 Walker B; other site 395494002741 D-loop; other site 395494002742 H-loop/switch region; other site 395494002743 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 395494002744 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 395494002745 acyl carrier protein; Provisional; Region: acpP; PRK00982 395494002746 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 395494002747 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 395494002748 dimer interface [polypeptide binding]; other site 395494002749 active site 395494002750 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 395494002751 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 395494002752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494002753 catalytic residue [active] 395494002754 YceG-like family; Region: YceG; pfam02618 395494002755 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 395494002756 dimerization interface [polypeptide binding]; other site 395494002757 thymidylate kinase; Validated; Region: tmk; PRK00698 395494002758 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 395494002759 TMP-binding site; other site 395494002760 ATP-binding site [chemical binding]; other site 395494002761 DNA polymerase III subunit delta'; Validated; Region: PRK06964 395494002762 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 395494002763 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 395494002764 active site 395494002765 AAA domain; Region: AAA_25; pfam13481 395494002766 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 395494002767 Walker A motif; other site 395494002768 ATP binding site [chemical binding]; other site 395494002769 Walker B motif; other site 395494002770 stationary phase growth adaptation protein; Provisional; Region: PRK09717 395494002771 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 395494002772 active site 395494002773 DNA binding site [nucleotide binding] 395494002774 Int/Topo IB signature motif; other site 395494002775 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 395494002776 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395494002777 Walker A/P-loop; other site 395494002778 ATP binding site [chemical binding]; other site 395494002779 Q-loop/lid; other site 395494002780 ABC transporter signature motif; other site 395494002781 Walker B; other site 395494002782 D-loop; other site 395494002783 H-loop/switch region; other site 395494002784 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_HprK; cl00270 395494002785 active site 395494002786 metal-binding site [ion binding] 395494002787 nucleotide-binding site [chemical binding]; other site 395494002788 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 395494002789 sulfotransferase; Region: PLN02164 395494002790 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 395494002791 active site 395494002792 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 395494002793 Ligand Binding Site [chemical binding]; other site 395494002794 Molecular Tunnel; other site 395494002795 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 395494002796 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 395494002797 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395494002798 Transposase; Region: HTH_Tnp_1; pfam01527 395494002799 FOG: CBS domain [General function prediction only]; Region: COG0517 395494002800 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 395494002801 FOG: CBS domain [General function prediction only]; Region: COG0517 395494002802 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 395494002803 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 395494002804 PAS fold; Region: PAS_4; pfam08448 395494002805 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494002806 GAF domain; Region: GAF; pfam01590 395494002807 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 395494002808 PAS domain; Region: PAS_9; pfam13426 395494002809 putative active site [active] 395494002810 heme pocket [chemical binding]; other site 395494002811 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494002812 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494002813 metal binding site [ion binding]; metal-binding site 395494002814 active site 395494002815 I-site; other site 395494002816 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 395494002817 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002818 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002819 active site 395494002820 phosphorylation site [posttranslational modification] 395494002821 intermolecular recognition site; other site 395494002822 dimerization interface [polypeptide binding]; other site 395494002823 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 395494002824 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002825 active site 395494002826 phosphorylation site [posttranslational modification] 395494002827 intermolecular recognition site; other site 395494002828 dimerization interface [polypeptide binding]; other site 395494002829 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494002830 Zn2+ binding site [ion binding]; other site 395494002831 Mg2+ binding site [ion binding]; other site 395494002832 Hemerythrin; Region: Hemerythrin; cd12107 395494002833 Fe binding site [ion binding]; other site 395494002834 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 395494002835 ATP binding site [chemical binding]; other site 395494002836 Mg2+ binding site [ion binding]; other site 395494002837 G-X-G motif; other site 395494002838 PAS domain S-box; Region: sensory_box; TIGR00229 395494002839 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 395494002840 putative active site [active] 395494002841 heme pocket [chemical binding]; other site 395494002842 GAF domain; Region: GAF_2; pfam13185 395494002843 GAF domain; Region: GAF_3; pfam13492 395494002844 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 395494002845 dimer interface [polypeptide binding]; other site 395494002846 phosphorylation site [posttranslational modification] 395494002847 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 395494002848 ATP binding site [chemical binding]; other site 395494002849 Mg2+ binding site [ion binding]; other site 395494002850 G-X-G motif; other site 395494002851 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 395494002852 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 395494002853 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395494002854 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 395494002855 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395494002856 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 395494002857 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 395494002858 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 395494002859 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 395494002860 active site 395494002861 GMP synthase; Reviewed; Region: guaA; PRK00074 395494002862 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 395494002863 AMP/PPi binding site [chemical binding]; other site 395494002864 candidate oxyanion hole; other site 395494002865 catalytic triad [active] 395494002866 potential glutamine specificity residues [chemical binding]; other site 395494002867 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 395494002868 ATP Binding subdomain [chemical binding]; other site 395494002869 Ligand Binding sites [chemical binding]; other site 395494002870 Dimerization subdomain; other site 395494002871 Cytochrome c; Region: Cytochrom_C; cl11414 395494002872 Cytochrome c; Region: Cytochrom_C; cl11414 395494002873 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 395494002874 FAD binding pocket [chemical binding]; other site 395494002875 FAD binding motif [chemical binding]; other site 395494002876 phosphate binding motif [ion binding]; other site 395494002877 beta-alpha-beta structure motif; other site 395494002878 NAD binding pocket [chemical binding]; other site 395494002879 Heme binding pocket [chemical binding]; other site 395494002880 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 395494002881 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 395494002882 catalytic loop [active] 395494002883 iron binding site [ion binding]; other site 395494002884 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 395494002885 DDE superfamily endonuclease; Region: DDE_5; cl17874 395494002886 DDE superfamily endonuclease; Region: DDE_5; cl17874 395494002887 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494002888 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 395494002889 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002890 active site 395494002891 phosphorylation site [posttranslational modification] 395494002892 intermolecular recognition site; other site 395494002893 dimerization interface [polypeptide binding]; other site 395494002894 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 395494002895 DNA binding site [nucleotide binding] 395494002896 sensor protein QseC; Provisional; Region: PRK10337 395494002897 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 395494002898 dimer interface [polypeptide binding]; other site 395494002899 phosphorylation site [posttranslational modification] 395494002900 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 395494002901 ATP binding site [chemical binding]; other site 395494002902 Mg2+ binding site [ion binding]; other site 395494002903 G-X-G motif; other site 395494002904 Predicted transcriptional regulator [Transcription]; Region: COG4190 395494002905 MarR family; Region: MarR_2; pfam12802 395494002906 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395494002907 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 395494002908 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494002909 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494002910 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395494002911 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395494002912 Short C-terminal domain; Region: SHOCT; pfam09851 395494002913 Domain of unknown function DUF302; Region: DUF302; pfam03625 395494002914 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395494002915 metal binding site 2 [ion binding]; metal-binding site 395494002916 putative DNA binding helix; other site 395494002917 metal binding site 1 [ion binding]; metal-binding site 395494002918 dimer interface [polypeptide binding]; other site 395494002919 structural Zn2+ binding site [ion binding]; other site 395494002920 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 395494002921 Iron permease FTR1 family; Region: FTR1; cl00475 395494002922 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395494002923 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; cl00207 395494002924 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494002925 Soluble P-type ATPase [General function prediction only]; Region: COG4087 395494002926 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395494002927 EamA-like transporter family; Region: EamA; pfam00892 395494002928 Replication initiator protein A; Region: RPA; cl17860 395494002929 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 395494002930 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 395494002931 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 395494002932 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 395494002933 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 395494002934 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 395494002935 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 395494002936 IHF - DNA interface [nucleotide binding]; other site 395494002937 IHF dimer interface [polypeptide binding]; other site 395494002938 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 395494002939 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 395494002940 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 395494002941 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 395494002942 Methyltransferase domain; Region: Methyltransf_26; pfam13659 395494002943 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 395494002944 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 395494002945 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 395494002946 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 395494002947 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 395494002948 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 395494002949 Predicted ATPase [General function prediction only]; Region: COG4637 395494002950 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395494002951 Walker A/P-loop; other site 395494002952 ATP binding site [chemical binding]; other site 395494002953 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 395494002954 Divergent AAA domain; Region: AAA_4; pfam04326 395494002955 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 395494002956 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 395494002957 FIC domain binding interface [polypeptide binding]; other site 395494002958 TIGR02687 family protein; Region: TIGR02687 395494002959 PglZ domain; Region: PglZ; pfam08665 395494002960 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 395494002961 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 395494002962 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 395494002963 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 395494002964 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 395494002965 Coenzyme A binding pocket [chemical binding]; other site 395494002966 Uncharacterized conserved protein [Function unknown]; Region: COG4933 395494002967 Archaeal adenylate kinase [Nucleotide transport and metabolism]; Region: AdkA; cl17890 395494002968 Dihydroneopterin aldolase; Region: FolB; pfam02152 395494002969 active site 395494002970 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 395494002971 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 395494002972 dimer interface [polypeptide binding]; other site 395494002973 active site 395494002974 glycine-pyridoxal phosphate binding site [chemical binding]; other site 395494002975 folate binding site [chemical binding]; other site 395494002976 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 395494002977 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 395494002978 THF binding site; other site 395494002979 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 395494002980 substrate binding site [chemical binding]; other site 395494002981 THF binding site; other site 395494002982 zinc-binding site [ion binding]; other site 395494002983 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 395494002984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395494002985 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 395494002986 putative dimerization interface [polypeptide binding]; other site 395494002987 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 395494002988 Phage integrase protein; Region: DUF3701; pfam12482 395494002989 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 395494002990 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 395494002991 active site 395494002992 DNA binding site [nucleotide binding] 395494002993 Int/Topo IB signature motif; other site 395494002994 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 395494002995 PRTRC system protein D; Region: PRTRC_D; TIGR03739 395494002996 Mg binding site [ion binding]; other site 395494002997 nucleotide binding site [chemical binding]; other site 395494002998 putative protofilament interface [polypeptide binding]; other site 395494002999 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 395494003000 Part of AAA domain; Region: AAA_19; pfam13245 395494003001 Family description; Region: UvrD_C_2; pfam13538 395494003002 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 395494003003 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 395494003004 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 395494003005 Walker A/P-loop; other site 395494003006 ATP binding site [chemical binding]; other site 395494003007 Q-loop/lid; other site 395494003008 ABC transporter signature motif; other site 395494003009 Walker B; other site 395494003010 D-loop; other site 395494003011 H-loop/switch region; other site 395494003012 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 395494003013 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494003014 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494003015 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494003016 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494003017 Zn2+ binding site [ion binding]; other site 395494003018 Mg2+ binding site [ion binding]; other site 395494003019 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 395494003020 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395494003021 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003022 active site 395494003023 phosphorylation site [posttranslational modification] 395494003024 intermolecular recognition site; other site 395494003025 dimerization interface [polypeptide binding]; other site 395494003026 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 395494003027 DNA binding site [nucleotide binding] 395494003028 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 395494003029 dimer interface [polypeptide binding]; other site 395494003030 phosphorylation site [posttranslational modification] 395494003031 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 395494003032 ATP binding site [chemical binding]; other site 395494003033 Mg2+ binding site [ion binding]; other site 395494003034 G-X-G motif; other site 395494003035 Predicted membrane protein [Function unknown]; Region: COG2510 395494003036 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395494003037 Transposase; Region: HTH_Tnp_1; cl17663 395494003038 Outer membrane efflux protein; Region: OEP; pfam02321 395494003039 Outer membrane efflux protein; Region: OEP; pfam02321 395494003040 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 395494003041 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494003042 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 395494003043 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395494003044 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 395494003045 Double zinc ribbon; Region: DZR; pfam12773 395494003046 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 395494003047 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 395494003048 MgtC family; Region: MgtC; pfam02308 395494003049 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395494003050 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 395494003051 metal-binding site [ion binding] 395494003052 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494003053 Soluble P-type ATPase [General function prediction only]; Region: COG4087 395494003054 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395494003055 EamA-like transporter family; Region: EamA; pfam00892 395494003056 EamA-like transporter family; Region: EamA; cl17759 395494003057 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 395494003058 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 395494003059 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 395494003060 TraU protein; Region: TraU; pfam06834 395494003061 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 395494003062 Putative helicase; Region: TraI_2; pfam07514 395494003063 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 395494003064 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 395494003065 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 395494003066 RecT family; Region: RecT; cl04285 395494003067 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 395494003068 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 395494003069 dimer interface [polypeptide binding]; other site 395494003070 ssDNA binding site [nucleotide binding]; other site 395494003071 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395494003072 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; pfam08273 395494003073 Toprim domain; Region: Toprim_3; pfam13362 395494003074 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 395494003075 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 395494003076 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 395494003077 putative active site [active] 395494003078 putative NTP binding site [chemical binding]; other site 395494003079 putative nucleic acid binding site [nucleotide binding]; other site 395494003080 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 395494003081 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 395494003082 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 395494003083 active site 395494003084 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 395494003085 MPN+ (JAMM) motif; other site 395494003086 Zinc-binding site [ion binding]; other site 395494003087 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 395494003088 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 395494003089 ParB-like nuclease domain; Region: ParB; smart00470 395494003090 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 395494003091 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 395494003092 PRTRC system protein E; Region: PRTRC_E; TIGR03741 395494003093 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 395494003094 PRTRC system protein F; Region: PRTRC_F; TIGR03742 395494003095 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 395494003096 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 395494003097 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 395494003098 PRTRC system protein A; Region: PRTRC_A; TIGR03735 395494003099 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 395494003100 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 395494003101 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 395494003102 ATP binding site [chemical binding]; other site 395494003103 substrate interface [chemical binding]; other site 395494003104 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395494003105 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395494003106 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395494003107 Fic/DOC family; Region: Fic; pfam02661 395494003108 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395494003109 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 395494003110 non-specific DNA binding site [nucleotide binding]; other site 395494003111 salt bridge; other site 395494003112 sequence-specific DNA binding site [nucleotide binding]; other site 395494003113 HipA N-terminal domain; Region: couple_hipA; TIGR03071 395494003114 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 395494003115 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395494003116 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395494003117 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 395494003118 PAS domain; Region: PAS_9; pfam13426 395494003119 putative active site [active] 395494003120 heme pocket [chemical binding]; other site 395494003121 PAS domain S-box; Region: sensory_box; TIGR00229 395494003122 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 395494003123 putative active site [active] 395494003124 heme pocket [chemical binding]; other site 395494003125 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494003126 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003127 metal binding site [ion binding]; metal-binding site 395494003128 active site 395494003129 I-site; other site 395494003130 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 395494003131 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494003132 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003133 dimer interface [polypeptide binding]; other site 395494003134 putative CheW interface [polypeptide binding]; other site 395494003135 HDOD domain; Region: HDOD; pfam08668 395494003136 Response regulator receiver domain; Region: Response_reg; pfam00072 395494003137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003138 active site 395494003139 phosphorylation site [posttranslational modification] 395494003140 intermolecular recognition site; other site 395494003141 dimerization interface [polypeptide binding]; other site 395494003142 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494003143 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003144 metal binding site [ion binding]; metal-binding site 395494003145 active site 395494003146 I-site; other site 395494003147 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 395494003148 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494003149 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003150 active site 395494003151 phosphorylation site [posttranslational modification] 395494003152 intermolecular recognition site; other site 395494003153 dimerization interface [polypeptide binding]; other site 395494003154 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 395494003155 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494003156 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003157 active site 395494003158 phosphorylation site [posttranslational modification] 395494003159 intermolecular recognition site; other site 395494003160 dimerization interface [polypeptide binding]; other site 395494003161 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 395494003162 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003163 active site 395494003164 phosphorylation site [posttranslational modification] 395494003165 intermolecular recognition site; other site 395494003166 dimerization interface [polypeptide binding]; other site 395494003167 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 395494003168 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 395494003169 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395494003170 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 395494003171 ATP binding site [chemical binding]; other site 395494003172 Mg2+ binding site [ion binding]; other site 395494003173 G-X-G motif; other site 395494003174 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 395494003175 Fic/DOC family; Region: Fic; pfam02661 395494003176 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 395494003177 IHF dimer interface [polypeptide binding]; other site 395494003178 IHF - DNA interface [nucleotide binding]; other site 395494003179 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 395494003180 GIY-YIG type nucleases (URI domain); Region: GIYc; smart00465 395494003181 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 395494003182 heme-binding site [chemical binding]; other site 395494003183 PAS domain; Region: PAS; smart00091 395494003184 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494003185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003186 metal binding site [ion binding]; metal-binding site 395494003187 active site 395494003188 I-site; other site 395494003189 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 395494003190 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395494003191 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 395494003192 non-specific DNA binding site [nucleotide binding]; other site 395494003193 salt bridge; other site 395494003194 sequence-specific DNA binding site [nucleotide binding]; other site 395494003195 HipA N-terminal domain; Region: Couple_hipA; pfam13657 395494003196 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395494003197 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395494003198 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395494003199 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 395494003200 non-specific DNA binding site [nucleotide binding]; other site 395494003201 salt bridge; other site 395494003202 sequence-specific DNA binding site [nucleotide binding]; other site 395494003203 HipA N-terminal domain; Region: Couple_hipA; pfam13657 395494003204 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 395494003205 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395494003206 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395494003207 addiction module antitoxin, RelB/DinJ family; Region: RelB_DinJ; TIGR02384 395494003208 HDOD domain; Region: HDOD; pfam08668 395494003209 Response regulator receiver domain; Region: Response_reg; pfam00072 395494003210 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003211 active site 395494003212 phosphorylation site [posttranslational modification] 395494003213 intermolecular recognition site; other site 395494003214 dimerization interface [polypeptide binding]; other site 395494003215 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494003216 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003217 metal binding site [ion binding]; metal-binding site 395494003218 active site 395494003219 I-site; other site 395494003220 Flagellar transcriptional activator (FlhD); Region: FlhD; pfam05247 395494003221 transcriptional activator FlhC; Provisional; Region: PRK12722 395494003222 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 395494003223 flagellar motor protein MotA; Validated; Region: PRK09110 395494003224 flagellar motor protein MotB; Validated; Region: motB; PRK09041 395494003225 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395494003226 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395494003227 ligand binding site [chemical binding]; other site 395494003228 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 395494003229 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494003230 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 395494003231 dimerization interface [polypeptide binding]; other site 395494003232 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003233 dimer interface [polypeptide binding]; other site 395494003234 putative CheW interface [polypeptide binding]; other site 395494003235 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 395494003236 PAS domain; Region: PAS_9; pfam13426 395494003237 putative active site [active] 395494003238 heme pocket [chemical binding]; other site 395494003239 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 395494003240 dimerization interface [polypeptide binding]; other site 395494003241 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494003242 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003243 dimer interface [polypeptide binding]; other site 395494003244 putative CheW interface [polypeptide binding]; other site 395494003245 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395494003246 Tar ligand binding domain homologue; Region: TarH; pfam02203 395494003247 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 395494003248 dimerization interface [polypeptide binding]; other site 395494003249 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003250 dimer interface [polypeptide binding]; other site 395494003251 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395494003252 putative CheW interface [polypeptide binding]; other site 395494003253 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 395494003254 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494003255 HAMP domain; Region: HAMP; pfam00672 395494003256 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003257 dimer interface [polypeptide binding]; other site 395494003258 putative CheW interface [polypeptide binding]; other site 395494003259 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 395494003260 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494003261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003262 active site 395494003263 phosphorylation site [posttranslational modification] 395494003264 intermolecular recognition site; other site 395494003265 dimerization interface [polypeptide binding]; other site 395494003266 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 395494003267 Response regulator receiver domain; Region: Response_reg; pfam00072 395494003268 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003269 active site 395494003270 phosphorylation site [posttranslational modification] 395494003271 intermolecular recognition site; other site 395494003272 dimerization interface [polypeptide binding]; other site 395494003273 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 395494003274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003275 active site 395494003276 phosphorylation site [posttranslational modification] 395494003277 intermolecular recognition site; other site 395494003278 dimerization interface [polypeptide binding]; other site 395494003279 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 395494003280 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 395494003281 chemotaxis protein CheA; Provisional; Region: PRK10547 395494003282 putative binding surface; other site 395494003283 active site 395494003284 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395494003285 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 395494003286 ATP binding site [chemical binding]; other site 395494003287 Mg2+ binding site [ion binding]; other site 395494003288 G-X-G motif; other site 395494003289 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 395494003290 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003291 dimer interface [polypeptide binding]; other site 395494003292 putative CheW interface [polypeptide binding]; other site 395494003293 Response regulator receiver domain; Region: Response_reg; pfam00072 395494003294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003295 active site 395494003296 phosphorylation site [posttranslational modification] 395494003297 intermolecular recognition site; other site 395494003298 dimerization interface [polypeptide binding]; other site 395494003299 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 395494003300 putative binding surface; other site 395494003301 active site 395494003302 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395494003303 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 395494003304 ATP binding site [chemical binding]; other site 395494003305 Mg2+ binding site [ion binding]; other site 395494003306 G-X-G motif; other site 395494003307 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 395494003308 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 395494003309 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 395494003310 PAS domain; Region: PAS_9; pfam13426 395494003311 putative active site [active] 395494003312 heme pocket [chemical binding]; other site 395494003313 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395494003314 Tar ligand binding domain homologue; Region: TarH; pfam02203 395494003315 HAMP domain; Region: HAMP; pfam00672 395494003316 PAS domain; Region: PAS_9; pfam13426 395494003317 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003318 dimer interface [polypeptide binding]; other site 395494003319 putative CheW interface [polypeptide binding]; other site 395494003320 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395494003321 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 395494003322 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 395494003323 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 395494003324 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 395494003325 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003326 active site 395494003327 phosphorylation site [posttranslational modification] 395494003328 intermolecular recognition site; other site 395494003329 dimerization interface [polypeptide binding]; other site 395494003330 CheB methylesterase; Region: CheB_methylest; pfam01339 395494003331 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 395494003332 anti sigma factor interaction site; other site 395494003333 regulatory phosphorylation site [posttranslational modification]; other site 395494003334 Response regulator receiver domain; Region: Response_reg; pfam00072 395494003335 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003336 active site 395494003337 phosphorylation site [posttranslational modification] 395494003338 intermolecular recognition site; other site 395494003339 dimerization interface [polypeptide binding]; other site 395494003340 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 395494003341 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494003342 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003343 active site 395494003344 phosphorylation site [posttranslational modification] 395494003345 intermolecular recognition site; other site 395494003346 Response regulator receiver domain; Region: Response_reg; pfam00072 395494003347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003348 active site 395494003349 phosphorylation site [posttranslational modification] 395494003350 intermolecular recognition site; other site 395494003351 dimerization interface [polypeptide binding]; other site 395494003352 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494003353 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003354 metal binding site [ion binding]; metal-binding site 395494003355 active site 395494003356 I-site; other site 395494003357 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 395494003358 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 395494003359 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 395494003360 FHIPEP family; Region: FHIPEP; pfam00771 395494003361 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 395494003362 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 395494003363 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 395494003364 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 395494003365 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 395494003366 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395494003367 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 395494003368 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 395494003369 DNA binding residues [nucleotide binding] 395494003370 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395494003371 flagellar motor protein MotA; Validated; Region: PRK08124 395494003372 flagellar motor protein MotD; Reviewed; Region: PRK09038 395494003373 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395494003374 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395494003375 ligand binding site [chemical binding]; other site 395494003376 FlgN protein; Region: FlgN; pfam05130 395494003377 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 395494003378 tyrosine decarboxylase; Region: PLN02880 395494003379 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 395494003380 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395494003381 catalytic residue [active] 395494003382 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 395494003383 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 395494003384 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 395494003385 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 395494003386 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 395494003387 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 395494003388 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 395494003389 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 395494003390 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 395494003391 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 395494003392 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 395494003393 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 395494003394 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 395494003395 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 395494003396 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395494003397 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 395494003398 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 395494003399 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 395494003400 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 395494003401 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 395494003402 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 395494003403 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 395494003404 Flagellar L-ring protein; Region: FlgH; pfam02107 395494003405 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 395494003406 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 395494003407 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 395494003408 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 395494003409 Rod binding protein; Region: Rod-binding; cl01626 395494003410 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 395494003411 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 395494003412 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 395494003413 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395494003414 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 395494003415 septum formation inhibitor; Reviewed; Region: minC; PRK00339 395494003416 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 395494003417 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 395494003418 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 395494003419 Switch I; other site 395494003420 Switch II; other site 395494003421 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 395494003422 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 395494003423 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 395494003424 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 395494003425 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 395494003426 flagellar motor switch protein; Validated; Region: fliN; PRK05698 395494003427 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 395494003428 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 395494003429 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 395494003430 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 395494003431 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 395494003432 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 395494003433 Flagellar FliJ protein; Region: FliJ; pfam02050 395494003434 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 395494003435 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 395494003436 Walker A motif/ATP binding site; other site 395494003437 Walker B motif; other site 395494003438 flagellar assembly protein H; Validated; Region: fliH; PRK05687 395494003439 Flagellar assembly protein FliH; Region: FliH; pfam02108 395494003440 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 395494003441 FliG C-terminal domain; Region: FliG_C; pfam01706 395494003442 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 395494003443 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 395494003444 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 395494003445 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 395494003446 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 395494003447 binding surface 395494003448 TPR motif; other site 395494003449 TPR repeat; Region: TPR_11; pfam13414 395494003450 TPR repeat; Region: TPR_11; pfam13414 395494003451 TPR repeat; Region: TPR_11; pfam13414 395494003452 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 395494003453 binding surface 395494003454 TPR motif; other site 395494003455 TPR repeat; Region: TPR_11; pfam13414 395494003456 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395494003457 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 395494003458 S-adenosylmethionine binding site [chemical binding]; other site 395494003459 Flagellar regulator YcgR; Region: YcgR; pfam07317 395494003460 PilZ domain; Region: PilZ; pfam07238 395494003461 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 395494003462 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 395494003463 Flagellar protein FliT; Region: FliT; pfam05400 395494003464 flagellar protein FliS; Validated; Region: fliS; PRK05685 395494003465 flagellar capping protein; Reviewed; Region: fliD; PRK08032 395494003466 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 395494003467 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 395494003468 FlaG protein; Region: FlaG; pfam03646 395494003469 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395494003470 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395494003471 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 395494003472 binding surface 395494003473 TPR repeat; Region: TPR_11; pfam13414 395494003474 TPR motif; other site 395494003475 TPR repeat; Region: TPR_11; pfam13414 395494003476 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 395494003477 binding surface 395494003478 TPR motif; other site 395494003479 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 395494003480 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 395494003481 binding surface 395494003482 TPR motif; other site 395494003483 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 395494003484 binding surface 395494003485 TPR motif; other site 395494003486 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 395494003487 binding surface 395494003488 TPR motif; other site 395494003489 TPR repeat; Region: TPR_11; pfam13414 395494003490 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 395494003491 TPR motif; other site 395494003492 binding surface 395494003493 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 395494003494 binding surface 395494003495 TPR motif; other site 395494003496 TPR repeat; Region: TPR_11; pfam13414 395494003497 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 395494003498 binding surface 395494003499 TPR motif; other site 395494003500 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 395494003501 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 395494003502 binding surface 395494003503 TPR motif; other site 395494003504 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 395494003505 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 395494003506 binding surface 395494003507 TPR motif; other site 395494003508 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 395494003509 binding surface 395494003510 TPR motif; other site 395494003511 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 395494003512 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 395494003513 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395494003514 TPR motif; other site 395494003515 binding surface 395494003516 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 395494003517 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 395494003518 TPR motif; other site 395494003519 binding surface 395494003520 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 395494003521 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 395494003522 binding surface 395494003523 TPR motif; other site 395494003524 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 395494003525 binding surface 395494003526 TPR motif; other site 395494003527 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 395494003528 TPR repeat; Region: TPR_11; pfam13414 395494003529 binding surface 395494003530 TPR motif; other site 395494003531 TPR repeat; Region: TPR_11; pfam13414 395494003532 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 395494003533 binding surface 395494003534 TPR motif; other site 395494003535 TPR repeat; Region: TPR_11; pfam13414 395494003536 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 395494003537 binding surface 395494003538 TPR motif; other site 395494003539 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395494003540 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 395494003541 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 395494003542 TPP-binding site [chemical binding]; other site 395494003543 dimer interface [polypeptide binding]; other site 395494003544 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 395494003545 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 395494003546 PYR/PP interface [polypeptide binding]; other site 395494003547 dimer interface [polypeptide binding]; other site 395494003548 TPP binding site [chemical binding]; other site 395494003549 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395494003550 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 395494003551 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 395494003552 FeS/SAM binding site; other site 395494003553 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395494003554 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 395494003555 S-adenosylmethionine binding site [chemical binding]; other site 395494003556 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395494003557 extended (e) SDRs; Region: SDR_e; cd08946 395494003558 NAD(P) binding site [chemical binding]; other site 395494003559 active site 395494003560 substrate binding site [chemical binding]; other site 395494003561 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395494003562 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 395494003563 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 395494003564 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395494003565 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 395494003566 S-adenosylmethionine binding site [chemical binding]; other site 395494003567 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 395494003568 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 395494003569 classical (c) SDRs; Region: SDR_c; cd05233 395494003570 NAD(P) binding site [chemical binding]; other site 395494003571 active site 395494003572 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395494003573 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 395494003574 S-adenosylmethionine binding site [chemical binding]; other site 395494003575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003576 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 395494003577 NAD(P) binding site [chemical binding]; other site 395494003578 active site 395494003579 B12 binding domain; Region: B12-binding; pfam02310 395494003580 B12 binding site [chemical binding]; other site 395494003581 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 395494003582 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 395494003583 FeS/SAM binding site; other site 395494003584 Radical SAM superfamily; Region: Radical_SAM; pfam04055 395494003585 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395494003586 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 395494003587 putative active site [active] 395494003588 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 395494003589 Radical SAM superfamily; Region: Radical_SAM; pfam04055 395494003590 FeS/SAM binding site; other site 395494003591 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 395494003592 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 395494003593 binding surface 395494003594 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395494003595 TPR motif; other site 395494003596 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 395494003597 binding surface 395494003598 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395494003599 TPR motif; other site 395494003600 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 395494003601 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 395494003602 binding surface 395494003603 TPR motif; other site 395494003604 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 395494003605 binding surface 395494003606 TPR motif; other site 395494003607 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 395494003608 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 395494003609 binding surface 395494003610 TPR motif; other site 395494003611 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 395494003612 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 395494003613 TPR motif; other site 395494003614 binding surface 395494003615 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395494003616 TPR repeat; Region: TPR_11; pfam13414 395494003617 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 395494003618 binding surface 395494003619 TPR motif; other site 395494003620 TPR repeat; Region: TPR_11; pfam13414 395494003621 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 395494003622 binding surface 395494003623 TPR motif; other site 395494003624 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 395494003625 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003626 metal binding site [ion binding]; metal-binding site 395494003627 active site 395494003628 I-site; other site 395494003629 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395494003630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003631 active site 395494003632 phosphorylation site [posttranslational modification] 395494003633 intermolecular recognition site; other site 395494003634 dimerization interface [polypeptide binding]; other site 395494003635 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 395494003636 DNA binding residues [nucleotide binding] 395494003637 dimerization interface [polypeptide binding]; other site 395494003638 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 395494003639 Catalytic domain of Protein Kinases; Region: PKc; cd00180 395494003640 active site 395494003641 ATP binding site [chemical binding]; other site 395494003642 substrate binding site [chemical binding]; other site 395494003643 activation loop (A-loop); other site 395494003644 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395494003645 cyclase homology domain; Region: CHD; cd07302 395494003646 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395494003647 nucleotidyl binding site; other site 395494003648 metal binding site [ion binding]; metal-binding site 395494003649 dimer interface [polypeptide binding]; other site 395494003650 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 395494003651 phosphopeptide binding site; other site 395494003652 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395494003653 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 395494003654 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 395494003655 PAS fold; Region: PAS_3; pfam08447 395494003656 putative active site [active] 395494003657 heme pocket [chemical binding]; other site 395494003658 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 395494003659 Histidine kinase; Region: HisKA_3; pfam07730 395494003660 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 395494003661 ATP binding site [chemical binding]; other site 395494003662 Mg2+ binding site [ion binding]; other site 395494003663 G-X-G motif; other site 395494003664 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 395494003665 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 395494003666 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 395494003667 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 395494003668 active site 395494003669 dimer interface [polypeptide binding]; other site 395494003670 motif 1; other site 395494003671 motif 2; other site 395494003672 motif 3; other site 395494003673 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 395494003674 anticodon binding site; other site 395494003675 translation initiation factor IF-3; Region: infC; TIGR00168 395494003676 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 395494003677 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 395494003678 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 395494003679 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 395494003680 23S rRNA binding site [nucleotide binding]; other site 395494003681 L21 binding site [polypeptide binding]; other site 395494003682 L13 binding site [polypeptide binding]; other site 395494003683 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 395494003684 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 395494003685 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 395494003686 dimer interface [polypeptide binding]; other site 395494003687 motif 1; other site 395494003688 active site 395494003689 motif 2; other site 395494003690 motif 3; other site 395494003691 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 395494003692 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 395494003693 putative tRNA-binding site [nucleotide binding]; other site 395494003694 B3/4 domain; Region: B3_4; pfam03483 395494003695 tRNA synthetase B5 domain; Region: B5; smart00874 395494003696 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 395494003697 dimer interface [polypeptide binding]; other site 395494003698 motif 1; other site 395494003699 motif 3; other site 395494003700 motif 2; other site 395494003701 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 395494003702 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 395494003703 IHF - DNA interface [nucleotide binding]; other site 395494003704 IHF dimer interface [polypeptide binding]; other site 395494003705 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 395494003706 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395494003707 DNA binding residues [nucleotide binding] 395494003708 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 395494003709 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 395494003710 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 395494003711 S-adenosylmethionine binding site [chemical binding]; other site 395494003712 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 395494003713 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395494003714 Peptidase family M23; Region: Peptidase_M23; pfam01551 395494003715 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 395494003716 FeS/SAM binding site; other site 395494003717 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 395494003718 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 395494003719 PAS fold; Region: PAS_4; pfam08448 395494003720 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 395494003721 putative active site [active] 395494003722 heme pocket [chemical binding]; other site 395494003723 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 395494003724 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 395494003725 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 395494003726 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 395494003727 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 395494003728 active site 395494003729 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 395494003730 Part of AAA domain; Region: AAA_19; pfam13245 395494003731 Family description; Region: UvrD_C_2; pfam13538 395494003732 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 395494003733 dinuclear metal binding motif [ion binding]; other site 395494003734 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 395494003735 FOG: CBS domain [General function prediction only]; Region: COG0517 395494003736 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 395494003737 FOG: CBS domain [General function prediction only]; Region: COG0517 395494003738 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 395494003739 PAS fold; Region: PAS_4; pfam08448 395494003740 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 395494003741 putative active site [active] 395494003742 heme pocket [chemical binding]; other site 395494003743 GAF domain; Region: GAF_2; pfam13185 395494003744 GAF domain; Region: GAF; pfam01590 395494003745 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494003746 GAF domain; Region: GAF; pfam01590 395494003747 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 395494003748 PAS domain; Region: PAS_9; pfam13426 395494003749 putative active site [active] 395494003750 heme pocket [chemical binding]; other site 395494003751 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494003752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003753 metal binding site [ion binding]; metal-binding site 395494003754 active site 395494003755 I-site; other site 395494003756 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 395494003757 MAEBL; Provisional; Region: PTZ00121 395494003758 PII uridylyl-transferase; Provisional; Region: PRK03059 395494003759 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395494003760 metal binding triad; other site 395494003761 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395494003762 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494003763 Zn2+ binding site [ion binding]; other site 395494003764 Mg2+ binding site [ion binding]; other site 395494003765 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 395494003766 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 395494003767 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 395494003768 active site 395494003769 DNA gyrase subunit A; Validated; Region: PRK05560 395494003770 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 395494003771 CAP-like domain; other site 395494003772 active site 395494003773 primary dimer interface [polypeptide binding]; other site 395494003774 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494003775 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494003776 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494003777 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494003778 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494003779 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494003780 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 395494003781 homodimer interface [polypeptide binding]; other site 395494003782 substrate-cofactor binding pocket; other site 395494003783 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494003784 catalytic residue [active] 395494003785 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 395494003786 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 395494003787 putative ligand binding site [chemical binding]; other site 395494003788 putative NAD binding site [chemical binding]; other site 395494003789 putative catalytic site [active] 395494003790 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 395494003791 L-serine binding site [chemical binding]; other site 395494003792 ACT domain interface; other site 395494003793 Chorismate mutase type II; Region: CM_2; cl00693 395494003794 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 395494003795 Prephenate dehydratase; Region: PDT; pfam00800 395494003796 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 395494003797 putative L-Phe binding site [chemical binding]; other site 395494003798 DDE superfamily endonuclease; Region: DDE_5; cl17874 395494003799 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494003800 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 395494003801 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 395494003802 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494003803 homodimer interface [polypeptide binding]; other site 395494003804 catalytic residue [active] 395494003805 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 395494003806 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 395494003807 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 395494003808 prephenate dehydrogenase; Validated; Region: PRK08507 395494003809 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 395494003810 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 395494003811 hinge; other site 395494003812 active site 395494003813 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 395494003814 CMP-binding site; other site 395494003815 The sites determining sugar specificity; other site 395494003816 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 395494003817 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 395494003818 RNA binding site [nucleotide binding]; other site 395494003819 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 395494003820 RNA binding site [nucleotide binding]; other site 395494003821 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 395494003822 RNA binding site [nucleotide binding]; other site 395494003823 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 395494003824 RNA binding site [nucleotide binding]; other site 395494003825 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 395494003826 RNA binding site [nucleotide binding]; other site 395494003827 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 395494003828 RNA binding site [nucleotide binding]; other site 395494003829 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 395494003830 IHF dimer interface [polypeptide binding]; other site 395494003831 IHF - DNA interface [nucleotide binding]; other site 395494003832 tetratricopeptide repeat protein; Provisional; Region: PRK11788 395494003833 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 395494003834 binding surface 395494003835 TPR motif; other site 395494003836 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 395494003837 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 395494003838 active site 395494003839 dimer interface [polypeptide binding]; other site 395494003840 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395494003841 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 395494003842 putative ribose interaction site [chemical binding]; other site 395494003843 putative ADP binding site [chemical binding]; other site 395494003844 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 395494003845 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 395494003846 NADP binding site [chemical binding]; other site 395494003847 homopentamer interface [polypeptide binding]; other site 395494003848 substrate binding site [chemical binding]; other site 395494003849 active site 395494003850 PAS domain; Region: PAS; smart00091 395494003851 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494003852 putative active site [active] 395494003853 heme pocket [chemical binding]; other site 395494003854 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 395494003855 putative active site [active] 395494003856 heme pocket [chemical binding]; other site 395494003857 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 395494003858 PAS domain; Region: PAS_9; pfam13426 395494003859 putative active site [active] 395494003860 heme pocket [chemical binding]; other site 395494003861 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494003862 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003863 metal binding site [ion binding]; metal-binding site 395494003864 active site 395494003865 I-site; other site 395494003866 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 395494003867 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395494003868 putative substrate translocation pore; other site 395494003869 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395494003870 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 395494003871 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 395494003872 dimer interface [polypeptide binding]; other site 395494003873 active site 395494003874 acyl carrier protein; Provisional; Region: acpP; PRK00982 395494003875 Esterase/lipase [General function prediction only]; Region: COG1647 395494003876 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395494003877 Methyltransferase domain; Region: Methyltransf_32; pfam13679 395494003878 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395494003879 Uncharacterized conserved protein [Function unknown]; Region: COG4095 395494003880 Outer membrane efflux protein; Region: OEP; pfam02321 395494003881 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 395494003882 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494003883 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395494003884 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 395494003885 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494003886 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 395494003887 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 395494003888 active site 395494003889 Substrate binding site; other site 395494003890 Mg++ binding site; other site 395494003891 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 395494003892 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 395494003893 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 395494003894 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 395494003895 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 395494003896 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 395494003897 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 395494003898 active site 395494003899 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 395494003900 ligand-binding site [chemical binding]; other site 395494003901 S-adenosylmethionine synthetase; Validated; Region: PRK05250 395494003902 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 395494003903 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 395494003904 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 395494003905 HAMP domain; Region: HAMP; pfam00672 395494003906 dimerization interface [polypeptide binding]; other site 395494003907 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494003908 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003909 metal binding site [ion binding]; metal-binding site 395494003910 active site 395494003911 I-site; other site 395494003912 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 395494003913 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 395494003914 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 395494003915 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 395494003916 metal binding triad [ion binding]; metal-binding site 395494003917 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 395494003918 Fumarase C-terminus; Region: Fumerase_C; pfam05683 395494003919 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 395494003920 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 395494003921 Walker A motif; other site 395494003922 ATP binding site [chemical binding]; other site 395494003923 Walker B motif; other site 395494003924 arginine finger; other site 395494003925 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 395494003926 hypothetical protein; Validated; Region: PRK00153 395494003927 recombination protein RecR; Reviewed; Region: recR; PRK00076 395494003928 RecR protein; Region: RecR; pfam02132 395494003929 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 395494003930 putative active site [active] 395494003931 putative metal-binding site [ion binding]; other site 395494003932 tetramer interface [polypeptide binding]; other site 395494003933 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395494003934 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 395494003935 RNA binding surface [nucleotide binding]; other site 395494003936 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 395494003937 probable active site [active] 395494003938 cyclase homology domain; Region: CHD; cd07302 395494003939 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395494003940 nucleotidyl binding site; other site 395494003941 metal binding site [ion binding]; metal-binding site 395494003942 dimer interface [polypeptide binding]; other site 395494003943 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 395494003944 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494003945 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 395494003946 active site 395494003947 ATP binding site [chemical binding]; other site 395494003948 substrate binding site [chemical binding]; other site 395494003949 activation loop (A-loop); other site 395494003950 L-aspartate oxidase; Provisional; Region: PRK09077 395494003951 L-aspartate oxidase; Provisional; Region: PRK06175 395494003952 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395494003953 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 395494003954 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395494003955 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 395494003956 DNA binding residues [nucleotide binding] 395494003957 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 395494003958 anti-sigma E factor; Provisional; Region: rseB; PRK09455 395494003959 MucB/RseB family; Region: MucB_RseB; pfam03888 395494003960 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 395494003961 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395494003962 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395494003963 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 395494003964 protein binding site [polypeptide binding]; other site 395494003965 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 395494003966 GTP-binding protein LepA; Provisional; Region: PRK05433 395494003967 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 395494003968 G1 box; other site 395494003969 putative GEF interaction site [polypeptide binding]; other site 395494003970 GTP/Mg2+ binding site [chemical binding]; other site 395494003971 Switch I region; other site 395494003972 G2 box; other site 395494003973 G3 box; other site 395494003974 Switch II region; other site 395494003975 G4 box; other site 395494003976 G5 box; other site 395494003977 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 395494003978 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 395494003979 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 395494003980 signal peptidase I; Provisional; Region: PRK10861 395494003981 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 395494003982 Catalytic site [active] 395494003983 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 395494003984 ribonuclease III; Reviewed; Region: rnc; PRK00102 395494003985 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 395494003986 dimerization interface [polypeptide binding]; other site 395494003987 active site 395494003988 metal binding site [ion binding]; metal-binding site 395494003989 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 395494003990 dsRNA binding site [nucleotide binding]; other site 395494003991 GTPase Era; Reviewed; Region: era; PRK00089 395494003992 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 395494003993 G1 box; other site 395494003994 GTP/Mg2+ binding site [chemical binding]; other site 395494003995 Switch I region; other site 395494003996 G2 box; other site 395494003997 Switch II region; other site 395494003998 G3 box; other site 395494003999 G4 box; other site 395494004000 G5 box; other site 395494004001 KH domain; Region: KH_2; pfam07650 395494004002 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 395494004003 Recombination protein O N terminal; Region: RecO_N; pfam11967 395494004004 Recombination protein O C terminal; Region: RecO_C; pfam02565 395494004005 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 395494004006 active site 395494004007 hydrophilic channel; other site 395494004008 dimerization interface [polypeptide binding]; other site 395494004009 catalytic residues [active] 395494004010 active site lid [active] 395494004011 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 395494004012 beta-hexosaminidase; Provisional; Region: PRK05337 395494004013 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 395494004014 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 395494004015 FtsZ protein binding site [polypeptide binding]; other site 395494004016 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 395494004017 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 395494004018 nucleotide binding pocket [chemical binding]; other site 395494004019 K-X-D-G motif; other site 395494004020 catalytic site [active] 395494004021 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 395494004022 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 395494004023 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 395494004024 Dimer interface [polypeptide binding]; other site 395494004025 BRCT sequence motif; other site 395494004026 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 395494004027 active site 395494004028 tetramer interface; other site 395494004029 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395494004030 active site 395494004031 5'-methylthioadenosine phosphorylase; Validated; Region: PRK09136 395494004032 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 395494004033 active site 395494004034 catalytic residues [active] 395494004035 metal binding site [ion binding]; metal-binding site 395494004036 Ion channel; Region: Ion_trans_2; pfam07885 395494004037 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 395494004038 TrkA-N domain; Region: TrkA_N; pfam02254 395494004039 TrkA-C domain; Region: TrkA_C; pfam02080 395494004040 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 395494004041 HSP70 interaction site [polypeptide binding]; other site 395494004042 aconitate hydratase; Validated; Region: PRK09277 395494004043 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 395494004044 substrate binding site [chemical binding]; other site 395494004045 ligand binding site [chemical binding]; other site 395494004046 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 395494004047 substrate binding site [chemical binding]; other site 395494004048 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 395494004049 potassium uptake protein; Region: kup; TIGR00794 395494004050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 395494004051 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 395494004052 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 395494004053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 395494004054 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 395494004055 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 395494004056 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 395494004057 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 395494004058 WYL domain; Region: WYL; pfam13280 395494004059 Uncharacterized conserved protein [Function unknown]; Region: COG1479 395494004060 Protein of unknown function DUF262; Region: DUF262; pfam03235 395494004061 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 395494004062 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 395494004063 HsdM N-terminal domain; Region: HsdM_N; pfam12161 395494004064 Methyltransferase domain; Region: Methyltransf_26; pfam13659 395494004065 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 395494004066 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494004067 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 395494004068 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494004069 Abortive infection C-terminus; Region: Abi_C; pfam14355 395494004070 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 395494004071 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 395494004072 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 395494004073 ATP binding site [chemical binding]; other site 395494004074 putative Mg++ binding site [ion binding]; other site 395494004075 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 395494004076 TIR domain; Region: TIR_2; pfam13676 395494004077 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 395494004078 TIR domain; Region: TIR_2; pfam13676 395494004079 AAA domain; Region: AAA_22; pfam13401 395494004080 Integrase core domain; Region: rve; pfam00665 395494004081 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 395494004082 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 395494004083 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395494004084 MULE transposase domain; Region: MULE; pfam10551 395494004085 TIR domain; Region: TIR_2; pfam13676 395494004086 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 395494004087 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 395494004088 TPR motif; other site 395494004089 binding surface 395494004090 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 395494004091 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 395494004092 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 395494004093 homodimer interface [polypeptide binding]; other site 395494004094 NADP binding site [chemical binding]; other site 395494004095 substrate binding site [chemical binding]; other site 395494004096 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 395494004097 dimer interface [polypeptide binding]; other site 395494004098 substrate binding site [chemical binding]; other site 395494004099 metal binding sites [ion binding]; metal-binding site 395494004100 6-phosphofructokinase; Provisional; Region: PRK14072 395494004101 active site 395494004102 ADP/pyrophosphate binding site [chemical binding]; other site 395494004103 fructose-1,6-bisphosphate binding site; other site 395494004104 dimerization interface [polypeptide binding]; other site 395494004105 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 395494004106 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395494004107 active site 395494004108 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 395494004109 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 395494004110 homodimer interface [polypeptide binding]; other site 395494004111 oligonucleotide binding site [chemical binding]; other site 395494004112 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 395494004113 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 395494004114 RNA binding surface [nucleotide binding]; other site 395494004115 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 395494004116 active site 395494004117 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 395494004118 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395494004119 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 395494004120 ligand binding site [chemical binding]; other site 395494004121 flexible hinge region; other site 395494004122 FOG: CBS domain [General function prediction only]; Region: COG0517 395494004123 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 395494004124 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494004125 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494004126 metal binding site [ion binding]; metal-binding site 395494004127 active site 395494004128 I-site; other site 395494004129 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 395494004130 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 395494004131 motif II; other site 395494004132 bacterial Hfq-like; Region: Hfq; cd01716 395494004133 hexamer interface [polypeptide binding]; other site 395494004134 Sm1 motif; other site 395494004135 RNA binding site [nucleotide binding]; other site 395494004136 Sm2 motif; other site 395494004137 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 395494004138 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 395494004139 HflX GTPase family; Region: HflX; cd01878 395494004140 G1 box; other site 395494004141 GTP/Mg2+ binding site [chemical binding]; other site 395494004142 Switch I region; other site 395494004143 G2 box; other site 395494004144 G3 box; other site 395494004145 Switch II region; other site 395494004146 G4 box; other site 395494004147 G5 box; other site 395494004148 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 395494004149 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 395494004150 HflK protein; Region: hflK; TIGR01933 395494004151 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 395494004152 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 395494004153 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 395494004154 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 395494004155 dimer interface [polypeptide binding]; other site 395494004156 motif 1; other site 395494004157 active site 395494004158 motif 2; other site 395494004159 motif 3; other site 395494004160 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 395494004161 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 395494004162 GDP-binding site [chemical binding]; other site 395494004163 ACT binding site; other site 395494004164 IMP binding site; other site 395494004165 ribonuclease R; Region: RNase_R; TIGR02063 395494004166 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 395494004167 RNB domain; Region: RNB; pfam00773 395494004168 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 395494004169 RNA binding site [nucleotide binding]; other site 395494004170 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 395494004171 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 395494004172 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 395494004173 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 395494004174 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395494004175 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395494004176 ligand binding site [chemical binding]; other site 395494004177 NAD synthetase; Provisional; Region: PRK13981 395494004178 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 395494004179 multimer interface [polypeptide binding]; other site 395494004180 active site 395494004181 catalytic triad [active] 395494004182 protein interface 1 [polypeptide binding]; other site 395494004183 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 395494004184 homodimer interface [polypeptide binding]; other site 395494004185 NAD binding pocket [chemical binding]; other site 395494004186 ATP binding pocket [chemical binding]; other site 395494004187 Mg binding site [ion binding]; other site 395494004188 active-site loop [active] 395494004189 ribosome maturation protein RimP; Reviewed; Region: PRK00092 395494004190 Sm and related proteins; Region: Sm_like; cl00259 395494004191 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 395494004192 putative oligomer interface [polypeptide binding]; other site 395494004193 putative RNA binding site [nucleotide binding]; other site 395494004194 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 395494004195 NusA N-terminal domain; Region: NusA_N; pfam08529 395494004196 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 395494004197 RNA binding site [nucleotide binding]; other site 395494004198 homodimer interface [polypeptide binding]; other site 395494004199 NusA-like KH domain; Region: KH_5; pfam13184 395494004200 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 395494004201 G-X-X-G motif; other site 395494004202 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 395494004203 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 395494004204 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 395494004205 translation initiation factor IF-2; Region: IF-2; TIGR00487 395494004206 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 395494004207 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 395494004208 G1 box; other site 395494004209 putative GEF interaction site [polypeptide binding]; other site 395494004210 GTP/Mg2+ binding site [chemical binding]; other site 395494004211 Switch I region; other site 395494004212 G2 box; other site 395494004213 G3 box; other site 395494004214 Switch II region; other site 395494004215 G4 box; other site 395494004216 G5 box; other site 395494004217 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 395494004218 Translation-initiation factor 2; Region: IF-2; pfam11987 395494004219 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 395494004220 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 395494004221 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 395494004222 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 395494004223 RNA binding site [nucleotide binding]; other site 395494004224 active site 395494004225 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 395494004226 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 395494004227 16S/18S rRNA binding site [nucleotide binding]; other site 395494004228 S13e-L30e interaction site [polypeptide binding]; other site 395494004229 25S rRNA binding site [nucleotide binding]; other site 395494004230 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 395494004231 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 395494004232 RNase E interface [polypeptide binding]; other site 395494004233 trimer interface [polypeptide binding]; other site 395494004234 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 395494004235 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 395494004236 RNase E interface [polypeptide binding]; other site 395494004237 trimer interface [polypeptide binding]; other site 395494004238 active site 395494004239 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 395494004240 putative nucleic acid binding region [nucleotide binding]; other site 395494004241 G-X-X-G motif; other site 395494004242 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 395494004243 RNA binding site [nucleotide binding]; other site 395494004244 domain interface; other site 395494004245 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395494004246 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 395494004247 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 395494004248 SLBB domain; Region: SLBB; pfam10531 395494004249 SLBB domain; Region: SLBB; pfam10531 395494004250 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 395494004251 Chain length determinant protein; Region: Wzz; pfam02706 395494004252 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 395494004253 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 395494004254 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 395494004255 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 395494004256 Substrate binding site; other site 395494004257 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 395494004258 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 395494004259 active site 395494004260 NTP binding site [chemical binding]; other site 395494004261 metal binding triad [ion binding]; metal-binding site 395494004262 antibiotic binding site [chemical binding]; other site 395494004263 Protein of unknown function DUF86; Region: DUF86; pfam01934 395494004264 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 395494004265 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 395494004266 NADP-binding site; other site 395494004267 homotetramer interface [polypeptide binding]; other site 395494004268 substrate binding site [chemical binding]; other site 395494004269 homodimer interface [polypeptide binding]; other site 395494004270 active site 395494004271 hypothetical protein; Reviewed; Region: PRK12275 395494004272 four helix bundle protein; Region: TIGR02436 395494004273 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 395494004274 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 395494004275 NADP binding site [chemical binding]; other site 395494004276 active site 395494004277 putative substrate binding site [chemical binding]; other site 395494004278 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 395494004279 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 395494004280 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 395494004281 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 395494004282 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 395494004283 NADP-binding site; other site 395494004284 homotetramer interface [polypeptide binding]; other site 395494004285 substrate binding site [chemical binding]; other site 395494004286 homodimer interface [polypeptide binding]; other site 395494004287 active site 395494004288 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 395494004289 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395494004290 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 395494004291 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 395494004292 metal-binding site 395494004293 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395494004294 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 395494004295 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 395494004296 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 395494004297 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395494004298 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 395494004299 putative ADP-binding pocket [chemical binding]; other site 395494004300 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395494004301 putative acyl transferase; Provisional; Region: PRK10502 395494004302 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 395494004303 putative trimer interface [polypeptide binding]; other site 395494004304 putative active site [active] 395494004305 putative substrate binding site [chemical binding]; other site 395494004306 putative CoA binding site [chemical binding]; other site 395494004307 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395494004308 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 395494004309 S-adenosylmethionine binding site [chemical binding]; other site 395494004310 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 395494004311 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 395494004312 putative metal binding site; other site 395494004313 putative glycosyl transferase; Provisional; Region: PRK10307 395494004314 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 395494004315 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 395494004316 Bacterial sugar transferase; Region: Bac_transf; pfam02397 395494004317 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 395494004318 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 395494004319 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 395494004320 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 395494004321 PAP2_like_5 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_5; cd03394 395494004322 active site 395494004323 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 395494004324 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 395494004325 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 395494004326 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 395494004327 phosphoglycolate phosphatase; Provisional; Region: PRK13222 395494004328 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 395494004329 motif II; other site 395494004330 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 395494004331 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 395494004332 S-adenosylmethionine binding site [chemical binding]; other site 395494004333 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 395494004334 Beta-lactamase; Region: Beta-lactamase; pfam00144 395494004335 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 395494004336 PAS fold; Region: PAS_4; pfam08448 395494004337 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 395494004338 PAS fold; Region: PAS_3; pfam08447 395494004339 putative active site [active] 395494004340 heme pocket [chemical binding]; other site 395494004341 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 395494004342 dimer interface [polypeptide binding]; other site 395494004343 phosphorylation site [posttranslational modification] 395494004344 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 395494004345 ATP binding site [chemical binding]; other site 395494004346 Mg2+ binding site [ion binding]; other site 395494004347 G-X-G motif; other site 395494004348 Response regulator receiver domain; Region: Response_reg; pfam00072 395494004349 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494004350 active site 395494004351 phosphorylation site [posttranslational modification] 395494004352 intermolecular recognition site; other site 395494004353 dimerization interface [polypeptide binding]; other site 395494004354 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395494004355 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 395494004356 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 395494004357 membrane-bound complex binding site; other site 395494004358 hinge residues; other site 395494004359 PAS domain S-box; Region: sensory_box; TIGR00229 395494004360 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 395494004361 putative active site [active] 395494004362 heme pocket [chemical binding]; other site 395494004363 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 395494004364 dimer interface [polypeptide binding]; other site 395494004365 phosphorylation site [posttranslational modification] 395494004366 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 395494004367 ATP binding site [chemical binding]; other site 395494004368 Mg2+ binding site [ion binding]; other site 395494004369 G-X-G motif; other site 395494004370 Response regulator receiver domain; Region: Response_reg; pfam00072 395494004371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494004372 active site 395494004373 phosphorylation site [posttranslational modification] 395494004374 intermolecular recognition site; other site 395494004375 dimerization interface [polypeptide binding]; other site 395494004376 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 395494004377 DEAD-like helicases superfamily; Region: DEXDc; smart00487 395494004378 ATP binding site [chemical binding]; other site 395494004379 Mg++ binding site [ion binding]; other site 395494004380 motif III; other site 395494004381 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 395494004382 nucleotide binding region [chemical binding]; other site 395494004383 ATP-binding site [chemical binding]; other site 395494004384 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 395494004385 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 395494004386 active site 395494004387 nucleophile elbow; other site 395494004388 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395494004389 PAS domain S-box; Region: sensory_box; TIGR00229 395494004390 PAS domain; Region: PAS_8; pfam13188 395494004391 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494004392 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494004393 metal binding site [ion binding]; metal-binding site 395494004394 active site 395494004395 I-site; other site 395494004396 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 395494004397 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 395494004398 HAMP domain; Region: HAMP; pfam00672 395494004399 PAS fold; Region: PAS_4; pfam08448 395494004400 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494004401 dimer interface [polypeptide binding]; other site 395494004402 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395494004403 putative CheW interface [polypeptide binding]; other site 395494004404 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 395494004405 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 395494004406 PAS domain; Region: PAS_9; pfam13426 395494004407 putative active site [active] 395494004408 heme pocket [chemical binding]; other site 395494004409 PAS domain S-box; Region: sensory_box; TIGR00229 395494004410 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 395494004411 putative active site [active] 395494004412 heme pocket [chemical binding]; other site 395494004413 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494004414 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 395494004415 dimer interface [polypeptide binding]; other site 395494004416 phosphorylation site [posttranslational modification] 395494004417 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 395494004418 ATP binding site [chemical binding]; other site 395494004419 Mg2+ binding site [ion binding]; other site 395494004420 G-X-G motif; other site 395494004421 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494004422 Response regulator receiver domain; Region: Response_reg; pfam00072 395494004423 active site 395494004424 phosphorylation site [posttranslational modification] 395494004425 intermolecular recognition site; other site 395494004426 dimerization interface [polypeptide binding]; other site 395494004427 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 395494004428 putative binding surface; other site 395494004429 active site 395494004430 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 395494004431 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 395494004432 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395494004433 metabolite-proton symporter; Region: 2A0106; TIGR00883 395494004434 putative substrate translocation pore; other site 395494004435 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 395494004436 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 395494004437 ATP binding site [chemical binding]; other site 395494004438 Mg2+ binding site [ion binding]; other site 395494004439 G-X-G motif; other site 395494004440 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 395494004441 ATP binding site [chemical binding]; other site 395494004442 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 395494004443 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 395494004444 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 395494004445 ligand binding site [chemical binding]; other site 395494004446 homodimer interface [polypeptide binding]; other site 395494004447 NAD(P) binding site [chemical binding]; other site 395494004448 trimer interface B [polypeptide binding]; other site 395494004449 trimer interface A [polypeptide binding]; other site 395494004450 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 395494004451 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 395494004452 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 395494004453 aminopeptidase N; Provisional; Region: pepN; PRK14015 395494004454 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 395494004455 active site 395494004456 Zn binding site [ion binding]; other site 395494004457 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 395494004458 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 395494004459 ATP binding site [chemical binding]; other site 395494004460 Mg2+ binding site [ion binding]; other site 395494004461 G-X-G motif; other site 395494004462 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 395494004463 anchoring element; other site 395494004464 dimer interface [polypeptide binding]; other site 395494004465 ATP binding site [chemical binding]; other site 395494004466 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 395494004467 active site 395494004468 metal binding site [ion binding]; metal-binding site 395494004469 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 395494004470 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 395494004471 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 395494004472 CAP-like domain; other site 395494004473 active site 395494004474 primary dimer interface [polypeptide binding]; other site 395494004475 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494004476 RmuC family; Region: RmuC; pfam02646 395494004477 Glucokinase; Region: Glucokinase; pfam02685 395494004478 glucokinase, proteobacterial type; Region: glk; TIGR00749 395494004479 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 395494004480 homodimer interface [polypeptide binding]; other site 395494004481 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 395494004482 active site pocket [active] 395494004483 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 395494004484 putative homodimer interface [polypeptide binding]; other site 395494004485 putative active site pocket [active] 395494004486 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 395494004487 glycogen synthase; Provisional; Region: glgA; PRK00654 395494004488 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 395494004489 ADP-binding pocket [chemical binding]; other site 395494004490 homodimer interface [polypeptide binding]; other site 395494004491 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 395494004492 S-adenosylmethionine binding site [chemical binding]; other site 395494004493 malate dehydrogenase; Provisional; Region: PRK05442 395494004494 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 395494004495 NAD(P) binding site [chemical binding]; other site 395494004496 dimer interface [polypeptide binding]; other site 395494004497 malate binding site [chemical binding]; other site 395494004498 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 395494004499 Iron-sulfur protein interface; other site 395494004500 proximal quinone binding site [chemical binding]; other site 395494004501 SdhD (CybS) interface [polypeptide binding]; other site 395494004502 proximal heme binding site [chemical binding]; other site 395494004503 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 395494004504 SdhC subunit interface [polypeptide binding]; other site 395494004505 proximal heme binding site [chemical binding]; other site 395494004506 cardiolipin binding site; other site 395494004507 Iron-sulfur protein interface; other site 395494004508 proximal quinone binding site [chemical binding]; other site 395494004509 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 395494004510 L-aspartate oxidase; Provisional; Region: PRK06175 395494004511 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395494004512 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 395494004513 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 395494004514 Uncharacterized conserved protein [Function unknown]; Region: COG2938 395494004515 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 395494004516 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 395494004517 dimer interface [polypeptide binding]; other site 395494004518 active site 395494004519 citrylCoA binding site [chemical binding]; other site 395494004520 NADH binding [chemical binding]; other site 395494004521 cationic pore residues; other site 395494004522 oxalacetate/citrate binding site [chemical binding]; other site 395494004523 coenzyme A binding site [chemical binding]; other site 395494004524 catalytic triad [active] 395494004525 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 395494004526 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 395494004527 TPP-binding site [chemical binding]; other site 395494004528 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 395494004529 dimer interface [polypeptide binding]; other site 395494004530 PYR/PP interface [polypeptide binding]; other site 395494004531 TPP binding site [chemical binding]; other site 395494004532 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 395494004533 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 395494004534 E3 interaction surface; other site 395494004535 lipoyl attachment site [posttranslational modification]; other site 395494004536 e3 binding domain; Region: E3_binding; pfam02817 395494004537 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 395494004538 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 395494004539 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 395494004540 NADP binding site [chemical binding]; other site 395494004541 dimer interface [polypeptide binding]; other site 395494004542 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 395494004543 Methyltransferase domain; Region: Methyltransf_11; pfam08241 395494004544 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 395494004545 RNA/DNA hybrid binding site [nucleotide binding]; other site 395494004546 active site 395494004547 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 395494004548 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 395494004549 active site 395494004550 catalytic site [active] 395494004551 substrate binding site [chemical binding]; other site 395494004552 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 395494004553 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395494004554 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 395494004555 HI0933-like protein; Region: HI0933_like; pfam03486 395494004556 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 395494004557 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 395494004558 oligomer interface [polypeptide binding]; other site 395494004559 metal binding site [ion binding]; metal-binding site 395494004560 metal binding site [ion binding]; metal-binding site 395494004561 putative Cl binding site [ion binding]; other site 395494004562 basic sphincter; other site 395494004563 hydrophobic gate; other site 395494004564 periplasmic entrance; other site 395494004565 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 395494004566 salt bridge; other site 395494004567 non-specific DNA binding site [nucleotide binding]; other site 395494004568 sequence-specific DNA binding site [nucleotide binding]; other site 395494004569 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 395494004570 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 395494004571 toxin interface [polypeptide binding]; other site 395494004572 Zn binding site [ion binding]; other site 395494004573 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494004574 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494004575 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494004576 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 395494004577 Outer membrane efflux protein; Region: OEP; pfam02321 395494004578 Outer membrane efflux protein; Region: OEP; pfam02321 395494004579 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 395494004580 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 395494004581 G1 box; other site 395494004582 putative GEF interaction site [polypeptide binding]; other site 395494004583 GTP/Mg2+ binding site [chemical binding]; other site 395494004584 Switch I region; other site 395494004585 G2 box; other site 395494004586 G3 box; other site 395494004587 Switch II region; other site 395494004588 G4 box; other site 395494004589 G5 box; other site 395494004590 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 395494004591 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 395494004592 hypothetical protein; Provisional; Region: PRK11018 395494004593 CPxP motif; other site 395494004594 putative inner membrane protein; Provisional; Region: PRK11099 395494004595 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 395494004596 IHF dimer interface [polypeptide binding]; other site 395494004597 IHF - DNA interface [nucleotide binding]; other site 395494004598 4-alpha-glucanotransferase; Provisional; Region: PRK14508 395494004599 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 395494004600 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 395494004601 putative active site [active] 395494004602 catalytic site [active] 395494004603 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 395494004604 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 395494004605 ligand binding site; other site 395494004606 oligomer interface; other site 395494004607 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 395494004608 dimer interface [polypeptide binding]; other site 395494004609 N-terminal domain interface [polypeptide binding]; other site 395494004610 sulfate 1 binding site; other site 395494004611 glycogen branching enzyme; Provisional; Region: PRK05402 395494004612 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 395494004613 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 395494004614 active site 395494004615 catalytic site [active] 395494004616 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 395494004617 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 395494004618 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 395494004619 active site 395494004620 dimer interface [polypeptide binding]; other site 395494004621 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 395494004622 dimer interface [polypeptide binding]; other site 395494004623 active site 395494004624 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 395494004625 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 395494004626 Walker A/P-loop; other site 395494004627 ATP binding site [chemical binding]; other site 395494004628 Q-loop/lid; other site 395494004629 ABC transporter signature motif; other site 395494004630 Walker B; other site 395494004631 D-loop; other site 395494004632 H-loop/switch region; other site 395494004633 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494004634 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 395494004635 dimer interface [polypeptide binding]; other site 395494004636 phosphorylation site [posttranslational modification] 395494004637 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 395494004638 ATP binding site [chemical binding]; other site 395494004639 Mg2+ binding site [ion binding]; other site 395494004640 G-X-G motif; other site 395494004641 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494004642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 395494004643 active site 395494004644 phosphorylation site [posttranslational modification] 395494004645 intermolecular recognition site; other site 395494004646 dimerization interface [polypeptide binding]; other site 395494004647 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 395494004648 DNA-binding site [nucleotide binding]; DNA binding site 395494004649 RNA-binding motif; other site 395494004650 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395494004651 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 395494004652 putative dimer interface [polypeptide binding]; other site 395494004653 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395494004654 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494004655 active site 395494004656 phosphorylation site [posttranslational modification] 395494004657 intermolecular recognition site; other site 395494004658 dimerization interface [polypeptide binding]; other site 395494004659 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 395494004660 DNA binding residues [nucleotide binding] 395494004661 dimerization interface [polypeptide binding]; other site 395494004662 PAS domain; Region: PAS_9; pfam13426 395494004663 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 395494004664 PAS fold; Region: PAS_3; pfam08447 395494004665 putative active site [active] 395494004666 heme pocket [chemical binding]; other site 395494004667 PAS fold; Region: PAS_4; pfam08448 395494004668 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 395494004669 putative active site [active] 395494004670 heme pocket [chemical binding]; other site 395494004671 PAS domain S-box; Region: sensory_box; TIGR00229 395494004672 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 395494004673 putative active site [active] 395494004674 heme pocket [chemical binding]; other site 395494004675 PAS domain; Region: PAS_9; pfam13426 395494004676 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 395494004677 Histidine kinase; Region: HisKA_3; pfam07730 395494004678 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 395494004679 ATP binding site [chemical binding]; other site 395494004680 Mg2+ binding site [ion binding]; other site 395494004681 G-X-G motif; other site 395494004682 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 395494004683 PAS domain; Region: PAS_9; pfam13426 395494004684 putative active site [active] 395494004685 heme pocket [chemical binding]; other site 395494004686 PAS domain; Region: PAS_9; pfam13426 395494004687 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494004688 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494004689 metal binding site [ion binding]; metal-binding site 395494004690 active site 395494004691 I-site; other site 395494004692 CheB methylesterase; Region: CheB_methylest; pfam01339 395494004693 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 395494004694 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395494004695 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 395494004696 Protein of unknown function (DUF904); Region: DUF904; pfam06005 395494004697 PAS domain; Region: PAS_10; pfam13596 395494004698 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 395494004699 PAS domain; Region: PAS_9; pfam13426 395494004700 putative active site [active] 395494004701 heme pocket [chemical binding]; other site 395494004702 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 395494004703 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 395494004704 putative active site [active] 395494004705 Zn binding site [ion binding]; other site 395494004706 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 395494004707 CoA binding domain; Region: CoA_binding_2; pfam13380 395494004708 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 395494004709 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 395494004710 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395494004711 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395494004712 Coenzyme A binding pocket [chemical binding]; other site 395494004713 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395494004714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395494004715 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 395494004716 putative effector binding pocket; other site 395494004717 dimerization interface [polypeptide binding]; other site 395494004718 Pirin-related protein [General function prediction only]; Region: COG1741 395494004719 Pirin; Region: Pirin; pfam02678 395494004720 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 395494004721 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 395494004722 YceI-like domain; Region: YceI; smart00867 395494004723 YceI-like domain; Region: YceI; smart00867 395494004724 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 395494004725 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 395494004726 FMN binding site [chemical binding]; other site 395494004727 active site 395494004728 substrate binding site [chemical binding]; other site 395494004729 catalytic residue [active] 395494004730 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 395494004731 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 395494004732 active site 395494004733 substrate binding site [chemical binding]; other site 395494004734 metal binding site [ion binding]; metal-binding site 395494004735 GTP-binding protein Der; Reviewed; Region: PRK00093 395494004736 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 395494004737 G1 box; other site 395494004738 GTP/Mg2+ binding site [chemical binding]; other site 395494004739 Switch I region; other site 395494004740 G2 box; other site 395494004741 Switch II region; other site 395494004742 G3 box; other site 395494004743 G4 box; other site 395494004744 G5 box; other site 395494004745 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 395494004746 G1 box; other site 395494004747 GTP/Mg2+ binding site [chemical binding]; other site 395494004748 Switch I region; other site 395494004749 G2 box; other site 395494004750 G3 box; other site 395494004751 Switch II region; other site 395494004752 G4 box; other site 395494004753 G5 box; other site 395494004754 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 395494004755 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 395494004756 Trp docking motif [polypeptide binding]; other site 395494004757 active site 395494004758 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 395494004759 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 395494004760 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 395494004761 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 395494004762 dimer interface [polypeptide binding]; other site 395494004763 motif 1; other site 395494004764 active site 395494004765 motif 2; other site 395494004766 motif 3; other site 395494004767 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 395494004768 anticodon binding site; other site 395494004769 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 395494004770 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 395494004771 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 395494004772 Helix-turn-helix domain; Region: HTH_25; pfam13413 395494004773 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 395494004774 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 395494004775 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 395494004776 binding surface 395494004777 TPR motif; other site 395494004778 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 395494004779 binding surface 395494004780 TPR motif; other site 395494004781 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 395494004782 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 395494004783 FeS/SAM binding site; other site 395494004784 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 395494004785 active site 395494004786 multimer interface [polypeptide binding]; other site 395494004787 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395494004788 Sel1-like repeats; Region: SEL1; smart00671 395494004789 Sel1-like repeats; Region: SEL1; smart00671 395494004790 Sel1-like repeats; Region: SEL1; smart00671 395494004791 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 395494004792 TilS substrate binding domain; Region: TilS; pfam09179 395494004793 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 395494004794 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 395494004795 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 395494004796 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 395494004797 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395494004798 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395494004799 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 395494004800 ligand binding site [chemical binding]; other site 395494004801 flexible hinge region; other site 395494004802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 395494004803 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 395494004804 aromatic arch; other site 395494004805 DCoH dimer interaction site [polypeptide binding]; other site 395494004806 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 395494004807 DCoH tetramer interaction site [polypeptide binding]; other site 395494004808 substrate binding site [chemical binding]; other site 395494004809 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 395494004810 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 395494004811 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 395494004812 heme binding site [chemical binding]; other site 395494004813 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 395494004814 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 395494004815 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 395494004816 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 395494004817 ATP binding site [chemical binding]; other site 395494004818 putative Mg++ binding site [ion binding]; other site 395494004819 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 395494004820 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494004821 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494004822 Virulence protein [General function prediction only]; Region: COG3943 395494004823 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 395494004824 HsdM N-terminal domain; Region: HsdM_N; pfam12161 395494004825 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 395494004826 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 395494004827 S-adenosylmethionine binding site [chemical binding]; other site 395494004828 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 395494004829 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 395494004830 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 395494004831 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 395494004832 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 395494004833 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 395494004834 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 395494004835 active site 395494004836 DNA binding site [nucleotide binding] 395494004837 Int/Topo IB signature motif; other site 395494004838 AAA ATPase domain; Region: AAA_16; pfam13191 395494004839 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395494004840 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 395494004841 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 395494004842 active site 395494004843 substrate binding site [chemical binding]; other site 395494004844 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 395494004845 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 395494004846 ATP binding site [chemical binding]; other site 395494004847 putative Mg++ binding site [ion binding]; other site 395494004848 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 395494004849 nucleotide binding region [chemical binding]; other site 395494004850 ATP-binding site [chemical binding]; other site 395494004851 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 395494004852 Part of AAA domain; Region: AAA_19; pfam13245 395494004853 Family description; Region: UvrD_C_2; pfam13538 395494004854 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 395494004855 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395494004856 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 395494004857 lipoyl-biotinyl attachment site [posttranslational modification]; other site 395494004858 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494004859 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 395494004860 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 395494004861 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395494004862 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395494004863 Walker A/P-loop; other site 395494004864 ATP binding site [chemical binding]; other site 395494004865 Q-loop/lid; other site 395494004866 ABC transporter signature motif; other site 395494004867 Walker B; other site 395494004868 D-loop; other site 395494004869 H-loop/switch region; other site 395494004870 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 395494004871 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 395494004872 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 395494004873 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 395494004874 Cadherin repeat-like domain; Region: CA_like; cl15786 395494004875 Cadherin repeat-like domain; Region: CA_like; cl15786 395494004876 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 395494004877 Ca2+ binding site [ion binding]; other site 395494004878 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 395494004879 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 395494004880 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 395494004881 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 395494004882 RTX toxin acyltransferase family; Region: HlyC; pfam02794 395494004883 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395494004884 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 395494004885 DNA binding residues [nucleotide binding] 395494004886 dimerization interface [polypeptide binding]; other site 395494004887 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395494004888 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 395494004889 non-specific DNA binding site [nucleotide binding]; other site 395494004890 salt bridge; other site 395494004891 sequence-specific DNA binding site [nucleotide binding]; other site 395494004892 Autoinducer synthetase; Region: Autoind_synth; cl17404 395494004893 Restriction endonuclease; Region: Mrr_cat; pfam04471 395494004894 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 395494004895 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 395494004896 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 395494004897 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 395494004898 sequence-specific DNA binding site [nucleotide binding]; other site 395494004899 salt bridge; other site 395494004900 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 395494004901 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395494004902 Sel1-like repeats; Region: SEL1; smart00671 395494004903 Sel1-like repeats; Region: SEL1; smart00671 395494004904 Sel1-like repeats; Region: SEL1; smart00671 395494004905 Sel1-like repeats; Region: SEL1; smart00671 395494004906 Sel1-like repeats; Region: SEL1; smart00671 395494004907 Short C-terminal domain; Region: SHOCT; pfam09851 395494004908 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 395494004909 non-specific DNA binding site [nucleotide binding]; other site 395494004910 salt bridge; other site 395494004911 sequence-specific DNA binding site [nucleotide binding]; other site 395494004912 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 395494004913 active site 395494004914 DNA binding site [nucleotide binding] 395494004915 Int/Topo IB signature motif; other site 395494004916 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 395494004917 IHF dimer interface [polypeptide binding]; other site 395494004918 IHF - DNA interface [nucleotide binding]; other site 395494004919 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 395494004920 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 395494004921 Zeta toxin; Region: Zeta_toxin; pfam06414 395494004922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 395494004923 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 395494004924 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 395494004925 active site 395494004926 interdomain interaction site; other site 395494004927 putative metal-binding site [ion binding]; other site 395494004928 nucleotide binding site [chemical binding]; other site 395494004929 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 395494004930 domain I; other site 395494004931 DNA binding groove [nucleotide binding] 395494004932 phosphate binding site [ion binding]; other site 395494004933 domain II; other site 395494004934 domain III; other site 395494004935 nucleotide binding site [chemical binding]; other site 395494004936 catalytic site [active] 395494004937 domain IV; other site 395494004938 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 395494004939 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 395494004940 catalytic residues [active] 395494004941 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 395494004942 putative FMN binding site [chemical binding]; other site 395494004943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395494004944 transcriptional activator TtdR; Provisional; Region: PRK09801 395494004945 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 395494004946 putative effector binding pocket; other site 395494004947 dimerization interface [polypeptide binding]; other site 395494004948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395494004949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395494004950 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 395494004951 putative effector binding pocket; other site 395494004952 dimerization interface [polypeptide binding]; other site 395494004953 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 395494004954 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 395494004955 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 395494004956 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 395494004957 YceI-like domain; Region: YceI; smart00867 395494004958 Uncharacterized conserved protein [Function unknown]; Region: COG2353 395494004959 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 395494004960 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 395494004961 TIR domain; Region: TIR_2; pfam13676 395494004962 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 395494004963 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 395494004964 IHF dimer interface [polypeptide binding]; other site 395494004965 IHF - DNA interface [nucleotide binding]; other site 395494004966 TIR domain; Region: TIR_2; pfam13676 395494004967 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 395494004968 active site 395494004969 DNA binding site [nucleotide binding] 395494004970 Int/Topo IB signature motif; other site 395494004971 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 395494004972 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 395494004973 P-loop; other site 395494004974 Magnesium ion binding site [ion binding]; other site 395494004975 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 395494004976 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 395494004977 active site 395494004978 catalytic residues [active] 395494004979 DNA binding site [nucleotide binding] 395494004980 Int/Topo IB signature motif; other site 395494004981 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 395494004982 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 395494004983 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395494004984 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 395494004985 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 395494004986 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 395494004987 inhibitor-cofactor binding pocket; inhibition site 395494004988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494004989 catalytic residue [active] 395494004990 Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16; Region: ACE1-Sec16-like; cl14807 395494004991 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 395494004992 active site 395494004993 DNA binding site [nucleotide binding] 395494004994 Int/Topo IB signature motif; other site 395494004995 integrase; Provisional; Region: int; PHA02601 395494004996 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 395494004997 active site 395494004998 DNA binding site [nucleotide binding] 395494004999 Int/Topo IB signature motif; other site 395494005000 Antirestriction protein (ArdA); Region: ArdA; cl01953 395494005001 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 395494005002 HipA N-terminal domain; Region: Couple_hipA; pfam13657 395494005003 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395494005004 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395494005005 Methyltransferase domain; Region: Methyltransf_26; pfam13659 395494005006 TIGR02687 family protein; Region: TIGR02687 395494005007 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 395494005008 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 395494005009 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 395494005010 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 395494005011 AAA-like domain; Region: AAA_10; pfam12846 395494005012 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 395494005013 AAA domain; Region: AAA_25; pfam13481 395494005014 Uncharacterized conserved protein [Function unknown]; Region: COG4938 395494005015 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 395494005016 Protein of unknown function DUF262; Region: DUF262; pfam03235 395494005017 Uncharacterized conserved protein [Function unknown]; Region: COG1479 395494005018 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 395494005019 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 395494005020 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 395494005021 GIY-YIG motif/motif A; other site 395494005022 active site 395494005023 catalytic site [active] 395494005024 putative DNA binding site [nucleotide binding]; other site 395494005025 metal binding site [ion binding]; metal-binding site 395494005026 UvrB/uvrC motif; Region: UVR; pfam02151 395494005027 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 395494005028 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 395494005029 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395494005030 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 395494005031 substrate binding site [chemical binding]; other site 395494005032 dimer interface [polypeptide binding]; other site 395494005033 ATP binding site [chemical binding]; other site 395494005034 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 395494005035 dimerization interface [polypeptide binding]; other site 395494005036 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494005037 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005038 metal binding site [ion binding]; metal-binding site 395494005039 active site 395494005040 I-site; other site 395494005041 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 395494005042 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 395494005043 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395494005044 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 395494005045 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 395494005046 PAS domain; Region: PAS_9; pfam13426 395494005047 putative active site [active] 395494005048 heme pocket [chemical binding]; other site 395494005049 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494005050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005051 metal binding site [ion binding]; metal-binding site 395494005052 active site 395494005053 I-site; other site 395494005054 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 395494005055 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395494005056 ligand binding site [chemical binding]; other site 395494005057 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395494005058 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 395494005059 NAD(P) binding site [chemical binding]; other site 395494005060 homotetramer interface [polypeptide binding]; other site 395494005061 homodimer interface [polypeptide binding]; other site 395494005062 active site 395494005063 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 395494005064 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 395494005065 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 395494005066 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 395494005067 dimer interface [polypeptide binding]; other site 395494005068 active site 395494005069 CoA binding pocket [chemical binding]; other site 395494005070 putative phosphate acyltransferase; Provisional; Region: PRK05331 395494005071 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 395494005072 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 395494005073 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 395494005074 active site 395494005075 dimer interface [polypeptide binding]; other site 395494005076 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 395494005077 putative SAM binding site [chemical binding]; other site 395494005078 homodimer interface [polypeptide binding]; other site 395494005079 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 395494005080 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 395494005081 putative ligand binding pocket/active site [active] 395494005082 putative metal binding site [ion binding]; other site 395494005083 AMMECR1; Region: AMMECR1; pfam01871 395494005084 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 395494005085 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 395494005086 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 395494005087 FeS/SAM binding site; other site 395494005088 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 395494005089 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 395494005090 ATP binding site [chemical binding]; other site 395494005091 putative Mg++ binding site [ion binding]; other site 395494005092 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 395494005093 nucleotide binding region [chemical binding]; other site 395494005094 ATP-binding site [chemical binding]; other site 395494005095 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 395494005096 HRDC domain; Region: HRDC; pfam00570 395494005097 HDOD domain; Region: HDOD; pfam08668 395494005098 AAA domain; Region: AAA_32; pfam13654 395494005099 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 395494005100 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395494005101 Sel1-like repeats; Region: SEL1; smart00671 395494005102 Sel1-like repeats; Region: SEL1; smart00671 395494005103 Sel1-like repeats; Region: SEL1; smart00671 395494005104 Sel1-like repeats; Region: SEL1; smart00671 395494005105 Sporulation related domain; Region: SPOR; cl10051 395494005106 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395494005107 Sel1 repeat; Region: Sel1; pfam08238 395494005108 Sel1-like repeats; Region: SEL1; smart00671 395494005109 Sel1-like repeats; Region: SEL1; smart00671 395494005110 Sel1 repeat; Region: Sel1; cl02723 395494005111 Sporulation related domain; Region: SPOR; pfam05036 395494005112 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 395494005113 dimerization interface [polypeptide binding]; other site 395494005114 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 395494005115 ATP binding site [chemical binding]; other site 395494005116 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 395494005117 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 395494005118 HupF/HypC family; Region: HupF_HypC; pfam01455 395494005119 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 395494005120 6-phosphofructokinase; Provisional; Region: PRK03202 395494005121 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 395494005122 active site 395494005123 ADP/pyrophosphate binding site [chemical binding]; other site 395494005124 dimerization interface [polypeptide binding]; other site 395494005125 allosteric effector site; other site 395494005126 fructose-1,6-bisphosphate binding site; other site 395494005127 Acylphosphatase; Region: Acylphosphatase; pfam00708 395494005128 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 395494005129 HypF finger; Region: zf-HYPF; pfam07503 395494005130 HypF finger; Region: zf-HYPF; pfam07503 395494005131 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 395494005132 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 395494005133 Spore Coat Protein U domain; Region: SCPU; pfam05229 395494005134 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 395494005135 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 395494005136 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 395494005137 PapC C-terminal domain; Region: PapC_C; pfam13953 395494005138 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 395494005139 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 395494005140 Spore Coat Protein U domain; Region: SCPU; pfam05229 395494005141 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 395494005142 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 395494005143 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 395494005144 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 395494005145 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395494005146 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 395494005147 SLBB domain; Region: SLBB; pfam10531 395494005148 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 395494005149 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 395494005150 catalytic loop [active] 395494005151 iron binding site [ion binding]; other site 395494005152 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 395494005153 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 395494005154 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 395494005155 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 395494005156 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 395494005157 Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit...; Region: H2MP_NAD-link-bidir; cd06066 395494005158 nickel binding site [ion binding]; other site 395494005159 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 395494005160 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 395494005161 hypothetical protein; Provisional; Region: PRK10396 395494005162 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 395494005163 SEC-C motif; Region: SEC-C; pfam02810 395494005164 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 395494005165 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 395494005166 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 395494005167 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 395494005168 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 395494005169 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 395494005170 active site 395494005171 HIGH motif; other site 395494005172 dimer interface [polypeptide binding]; other site 395494005173 KMSKS motif; other site 395494005174 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 395494005175 Peptidase family M50; Region: Peptidase_M50; pfam02163 395494005176 active site 395494005177 putative substrate binding region [chemical binding]; other site 395494005178 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 395494005179 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 395494005180 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 395494005181 active site 395494005182 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 395494005183 hypothetical protein; Validated; Region: PRK01777 395494005184 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 395494005185 putative coenzyme Q binding site [chemical binding]; other site 395494005186 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 395494005187 SmpB-tmRNA interface; other site 395494005188 methionine sulfoxide reductase A; Provisional; Region: PRK14054 395494005189 siroheme synthase; Provisional; Region: cysG; PRK10637 395494005190 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 395494005191 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 395494005192 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 395494005193 active site 395494005194 SAM binding site [chemical binding]; other site 395494005195 homodimer interface [polypeptide binding]; other site 395494005196 HPP family; Region: HPP; pfam04982 395494005197 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 395494005198 cyanophycin synthetase; Provisional; Region: PRK14016 395494005199 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 395494005200 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494005201 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395494005202 cyanophycin synthetase; Provisional; Region: PRK14016 395494005203 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 395494005204 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494005205 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395494005206 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395494005207 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 395494005208 Walker A/P-loop; other site 395494005209 ATP binding site [chemical binding]; other site 395494005210 Q-loop/lid; other site 395494005211 ABC transporter signature motif; other site 395494005212 Walker B; other site 395494005213 D-loop; other site 395494005214 H-loop/switch region; other site 395494005215 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 395494005216 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 395494005217 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 395494005218 Protein of unknown function (DUF524); Region: DUF524; pfam04411 395494005219 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 395494005220 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 395494005221 putative active site [active] 395494005222 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 395494005223 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 395494005224 active site 395494005225 HIGH motif; other site 395494005226 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 395494005227 active site 395494005228 KMSKS motif; other site 395494005229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005230 metal binding site [ion binding]; metal-binding site 395494005231 active site 395494005232 I-site; other site 395494005233 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 395494005234 HDOD domain; Region: HDOD; pfam08668 395494005235 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 395494005236 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395494005237 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395494005238 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 395494005239 ligand binding site [chemical binding]; other site 395494005240 flexible hinge region; other site 395494005241 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395494005242 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 395494005243 ligand binding site [chemical binding]; other site 395494005244 flexible hinge region; other site 395494005245 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 395494005246 4Fe-4S binding domain; Region: Fer4_6; pfam12837 395494005247 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 395494005248 FHA domain; Region: FHA; pfam00498 395494005249 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 395494005250 heme-binding residues [chemical binding]; other site 395494005251 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 395494005252 heme-binding residues [chemical binding]; other site 395494005253 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494005254 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005255 metal binding site [ion binding]; metal-binding site 395494005256 active site 395494005257 I-site; other site 395494005258 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 395494005259 SurA N-terminal domain; Region: SurA_N_3; cl07813 395494005260 periplasmic folding chaperone; Provisional; Region: PRK10788 395494005261 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 395494005262 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 395494005263 IHF dimer interface [polypeptide binding]; other site 395494005264 IHF - DNA interface [nucleotide binding]; other site 395494005265 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 395494005266 Found in ATP-dependent protease La (LON); Region: LON; smart00464 395494005267 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 395494005268 Walker A motif; other site 395494005269 ATP binding site [chemical binding]; other site 395494005270 Walker B motif; other site 395494005271 arginine finger; other site 395494005272 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 395494005273 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 395494005274 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 395494005275 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 395494005276 Walker A motif; other site 395494005277 ATP binding site [chemical binding]; other site 395494005278 Walker B motif; other site 395494005279 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 395494005280 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 395494005281 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 395494005282 oligomer interface [polypeptide binding]; other site 395494005283 active site residues [active] 395494005284 trigger factor; Provisional; Region: tig; PRK01490 395494005285 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 395494005286 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 395494005287 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494005288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005289 active site 395494005290 phosphorylation site [posttranslational modification] 395494005291 intermolecular recognition site; other site 395494005292 dimerization interface [polypeptide binding]; other site 395494005293 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 395494005294 putative active site [active] 395494005295 PAS fold; Region: PAS_3; pfam08447 395494005296 heme pocket [chemical binding]; other site 395494005297 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 395494005298 PAS domain; Region: PAS_9; pfam13426 395494005299 putative active site [active] 395494005300 heme pocket [chemical binding]; other site 395494005301 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494005302 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005303 metal binding site [ion binding]; metal-binding site 395494005304 active site 395494005305 I-site; other site 395494005306 PAS fold; Region: PAS_3; pfam08447 395494005307 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395494005308 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 395494005309 PAS domain; Region: PAS_9; pfam13426 395494005310 putative active site [active] 395494005311 heme pocket [chemical binding]; other site 395494005312 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 395494005313 ATP binding site [chemical binding]; other site 395494005314 Mg2+ binding site [ion binding]; other site 395494005315 G-X-G motif; other site 395494005316 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 395494005317 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 395494005318 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 395494005319 B12 binding site [chemical binding]; other site 395494005320 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 395494005321 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 395494005322 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 395494005323 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 395494005324 catalytic loop [active] 395494005325 iron binding site [ion binding]; other site 395494005326 Response regulator receiver domain; Region: Response_reg; pfam00072 395494005327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005328 active site 395494005329 phosphorylation site [posttranslational modification] 395494005330 intermolecular recognition site; other site 395494005331 dimerization interface [polypeptide binding]; other site 395494005332 PAS fold; Region: PAS_4; pfam08448 395494005333 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 395494005334 putative active site [active] 395494005335 heme pocket [chemical binding]; other site 395494005336 PAS domain S-box; Region: sensory_box; TIGR00229 395494005337 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 395494005338 putative active site [active] 395494005339 heme pocket [chemical binding]; other site 395494005340 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494005341 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 395494005342 putative active site [active] 395494005343 heme pocket [chemical binding]; other site 395494005344 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 395494005345 dimer interface [polypeptide binding]; other site 395494005346 phosphorylation site [posttranslational modification] 395494005347 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 395494005348 ATP binding site [chemical binding]; other site 395494005349 Mg2+ binding site [ion binding]; other site 395494005350 G-X-G motif; other site 395494005351 Response regulator receiver domain; Region: Response_reg; pfam00072 395494005352 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005353 active site 395494005354 phosphorylation site [posttranslational modification] 395494005355 intermolecular recognition site; other site 395494005356 dimerization interface [polypeptide binding]; other site 395494005357 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 395494005358 PAS fold; Region: PAS_3; pfam08447 395494005359 putative active site [active] 395494005360 heme pocket [chemical binding]; other site 395494005361 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 395494005362 PAS domain; Region: PAS_9; pfam13426 395494005363 putative active site [active] 395494005364 heme pocket [chemical binding]; other site 395494005365 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494005366 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005367 metal binding site [ion binding]; metal-binding site 395494005368 active site 395494005369 I-site; other site 395494005370 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 395494005371 SapC; Region: SapC; pfam07277 395494005372 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 395494005373 Uncharacterized conserved protein [Function unknown]; Region: COG1262 395494005374 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 395494005375 PAS domain; Region: PAS_9; pfam13426 395494005376 putative active site [active] 395494005377 heme pocket [chemical binding]; other site 395494005378 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494005379 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005380 metal binding site [ion binding]; metal-binding site 395494005381 active site 395494005382 I-site; other site 395494005383 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 395494005384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005385 response regulator; Provisional; Region: PRK09483 395494005386 active site 395494005387 phosphorylation site [posttranslational modification] 395494005388 intermolecular recognition site; other site 395494005389 dimerization interface [polypeptide binding]; other site 395494005390 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 395494005391 DNA binding residues [nucleotide binding] 395494005392 Response regulator receiver domain; Region: Response_reg; pfam00072 395494005393 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005394 active site 395494005395 phosphorylation site [posttranslational modification] 395494005396 intermolecular recognition site; other site 395494005397 dimerization interface [polypeptide binding]; other site 395494005398 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 395494005399 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 395494005400 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 395494005401 FeS/SAM binding site; other site 395494005402 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 395494005403 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 395494005404 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 395494005405 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 395494005406 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 395494005407 putative active site [active] 395494005408 metal binding site [ion binding]; metal-binding site 395494005409 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 395494005410 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 395494005411 DHH family; Region: DHH; pfam01368 395494005412 DHHA1 domain; Region: DHHA1; pfam02272 395494005413 aspartate kinase; Reviewed; Region: PRK06635 395494005414 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 395494005415 putative nucleotide binding site [chemical binding]; other site 395494005416 putative catalytic residues [active] 395494005417 putative Mg ion binding site [ion binding]; other site 395494005418 putative aspartate binding site [chemical binding]; other site 395494005419 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 395494005420 putative allosteric regulatory site; other site 395494005421 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 395494005422 putative allosteric regulatory residue; other site 395494005423 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 395494005424 Site-specific recombinase; Region: SpecificRecomb; pfam10136 395494005425 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494005426 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 395494005427 dimerization interface [polypeptide binding]; other site 395494005428 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 395494005429 dimer interface [polypeptide binding]; other site 395494005430 phosphorylation site [posttranslational modification] 395494005431 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 395494005432 ATP binding site [chemical binding]; other site 395494005433 Mg2+ binding site [ion binding]; other site 395494005434 G-X-G motif; other site 395494005435 response regulator GlrR; Provisional; Region: PRK15115 395494005436 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005437 active site 395494005438 phosphorylation site [posttranslational modification] 395494005439 intermolecular recognition site; other site 395494005440 dimerization interface [polypeptide binding]; other site 395494005441 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 395494005442 Walker A motif; other site 395494005443 ATP binding site [chemical binding]; other site 395494005444 Walker B motif; other site 395494005445 arginine finger; other site 395494005446 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 395494005447 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 395494005448 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 395494005449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 395494005450 Zeta toxin; Region: Zeta_toxin; pfam06414 395494005451 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 395494005452 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 395494005453 catalytic residues [active] 395494005454 catalytic nucleophile [active] 395494005455 Recombinase; Region: Recombinase; pfam07508 395494005456 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 395494005457 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 395494005458 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 395494005459 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 395494005460 putative NAD(P) binding site [chemical binding]; other site 395494005461 putative active site [active] 395494005462 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494005463 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494005464 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494005465 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 395494005466 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 395494005467 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395494005468 FtsX-like permease family; Region: FtsX; pfam02687 395494005469 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 395494005470 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395494005471 Walker A/P-loop; other site 395494005472 ATP binding site [chemical binding]; other site 395494005473 Q-loop/lid; other site 395494005474 ABC transporter signature motif; other site 395494005475 Walker B; other site 395494005476 D-loop; other site 395494005477 H-loop/switch region; other site 395494005478 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 395494005479 ComEC family competence protein; Provisional; Region: PRK11539 395494005480 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 395494005481 Competence protein; Region: Competence; pfam03772 395494005482 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395494005483 Hemerythrin-like domain; Region: Hr-like; cd12108 395494005484 Fe binding site [ion binding]; other site 395494005485 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395494005486 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 395494005487 NlpC/P60 family; Region: NLPC_P60; pfam00877 395494005488 Transglycosylase SLT domain; Region: SLT_2; pfam13406 395494005489 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 395494005490 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395494005491 thioredoxin reductase; Provisional; Region: PRK10262 395494005492 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395494005493 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494005494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 395494005495 Smr domain; Region: Smr; pfam01713 395494005496 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 395494005497 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 395494005498 dimer interface [polypeptide binding]; other site 395494005499 phosphorylation site [posttranslational modification] 395494005500 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 395494005501 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 395494005502 ATP binding site [chemical binding]; other site 395494005503 Mg2+ binding site [ion binding]; other site 395494005504 G-X-G motif; other site 395494005505 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395494005506 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005507 active site 395494005508 phosphorylation site [posttranslational modification] 395494005509 intermolecular recognition site; other site 395494005510 dimerization interface [polypeptide binding]; other site 395494005511 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 395494005512 DNA binding site [nucleotide binding] 395494005513 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 395494005514 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 395494005515 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 395494005516 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395494005517 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494005518 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494005519 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494005520 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 395494005521 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395494005522 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 395494005523 Walker A/P-loop; other site 395494005524 ATP binding site [chemical binding]; other site 395494005525 Q-loop/lid; other site 395494005526 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 395494005527 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 395494005528 Q-loop/lid; other site 395494005529 ABC transporter signature motif; other site 395494005530 Walker B; other site 395494005531 D-loop; other site 395494005532 H-loop/switch region; other site 395494005533 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 395494005534 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 395494005535 homodimer interface [polypeptide binding]; other site 395494005536 chemical substrate binding site [chemical binding]; other site 395494005537 oligomer interface [polypeptide binding]; other site 395494005538 metal binding site [ion binding]; metal-binding site 395494005539 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 395494005540 selenophosphate synthetase; Provisional; Region: PRK00943 395494005541 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 395494005542 dimerization interface [polypeptide binding]; other site 395494005543 putative ATP binding site [chemical binding]; other site 395494005544 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 395494005545 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 395494005546 active site residue [active] 395494005547 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 395494005548 Walker A motif; other site 395494005549 Predicted ATPase [General function prediction only]; Region: COG1485 395494005550 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395494005551 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 395494005552 dimer interface [polypeptide binding]; other site 395494005553 putative metal binding site [ion binding]; other site 395494005554 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 395494005555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494005556 ATP-grasp domain; Region: ATP-grasp; pfam02222 395494005557 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 395494005558 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 395494005559 putative active site; other site 395494005560 catalytic residue [active] 395494005561 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 395494005562 dimerization interface [polypeptide binding]; other site 395494005563 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 395494005564 PAS domain; Region: PAS_9; pfam13426 395494005565 putative active site [active] 395494005566 heme pocket [chemical binding]; other site 395494005567 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494005568 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005569 metal binding site [ion binding]; metal-binding site 395494005570 active site 395494005571 I-site; other site 395494005572 HDOD domain; Region: HDOD; pfam08668 395494005573 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494005574 Zn2+ binding site [ion binding]; other site 395494005575 Mg2+ binding site [ion binding]; other site 395494005576 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 395494005577 EamA-like transporter family; Region: EamA; pfam00892 395494005578 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 395494005579 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395494005580 dimer interface [polypeptide binding]; other site 395494005581 conserved gate region; other site 395494005582 ABC-ATPase subunit interface; other site 395494005583 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 395494005584 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 395494005585 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 395494005586 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395494005587 Walker A/P-loop; other site 395494005588 ATP binding site [chemical binding]; other site 395494005589 Q-loop/lid; other site 395494005590 ABC transporter signature motif; other site 395494005591 Walker B; other site 395494005592 D-loop; other site 395494005593 H-loop/switch region; other site 395494005594 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395494005595 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 395494005596 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 395494005597 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 395494005598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494005599 homodimer interface [polypeptide binding]; other site 395494005600 catalytic residue [active] 395494005601 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 395494005602 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 395494005603 trimer interface [polypeptide binding]; other site 395494005604 active site 395494005605 substrate binding site [chemical binding]; other site 395494005606 CoA binding site [chemical binding]; other site 395494005607 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 395494005608 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 395494005609 Walker A motif; other site 395494005610 ATP binding site [chemical binding]; other site 395494005611 Walker B motif; other site 395494005612 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 395494005613 ArsC family; Region: ArsC; pfam03960 395494005614 putative catalytic residues [active] 395494005615 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 395494005616 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 395494005617 metal binding site [ion binding]; metal-binding site 395494005618 dimer interface [polypeptide binding]; other site 395494005619 HemK family putative methylases; Region: hemK_fam; TIGR00536 395494005620 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 395494005621 S-adenosylmethionine binding site [chemical binding]; other site 395494005622 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 395494005623 active site lid residues [active] 395494005624 substrate binding pocket [chemical binding]; other site 395494005625 catalytic residues [active] 395494005626 substrate-Mg2+ binding site; other site 395494005627 aspartate-rich region 1; other site 395494005628 aspartate-rich region 2; other site 395494005629 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 395494005630 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 395494005631 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 395494005632 active site lid residues [active] 395494005633 substrate binding pocket [chemical binding]; other site 395494005634 catalytic residues [active] 395494005635 substrate-Mg2+ binding site; other site 395494005636 aspartate-rich region 1; other site 395494005637 aspartate-rich region 2; other site 395494005638 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395494005639 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 395494005640 hypothetical protein; Provisional; Region: PRK06132 395494005641 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 395494005642 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 395494005643 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 395494005644 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 395494005645 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 395494005646 dimer interface [polypeptide binding]; other site 395494005647 putative anticodon binding site; other site 395494005648 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 395494005649 motif 1; other site 395494005650 active site 395494005651 motif 2; other site 395494005652 motif 3; other site 395494005653 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395494005654 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 395494005655 ligand binding site [chemical binding]; other site 395494005656 flexible hinge region; other site 395494005657 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 395494005658 putative switch regulator; other site 395494005659 non-specific DNA interactions [nucleotide binding]; other site 395494005660 DNA binding site [nucleotide binding] 395494005661 sequence specific DNA binding site [nucleotide binding]; other site 395494005662 putative cAMP binding site [chemical binding]; other site 395494005663 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 395494005664 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395494005665 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395494005666 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 395494005667 metal-binding site [ion binding] 395494005668 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494005669 Soluble P-type ATPase [General function prediction only]; Region: COG4087 395494005670 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 395494005671 ligand binding site [chemical binding]; other site 395494005672 active site 395494005673 UGI interface [polypeptide binding]; other site 395494005674 catalytic site [active] 395494005675 Uncharacterized conserved protein [Function unknown]; Region: COG3025 395494005676 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 395494005677 putative active site [active] 395494005678 putative metal binding residues [ion binding]; other site 395494005679 signature motif; other site 395494005680 putative triphosphate binding site [ion binding]; other site 395494005681 CHAD domain; Region: CHAD; pfam05235 395494005682 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 395494005683 putative active site [active] 395494005684 helicase 45; Provisional; Region: PTZ00424 395494005685 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 395494005686 ATP binding site [chemical binding]; other site 395494005687 Mg++ binding site [ion binding]; other site 395494005688 motif III; other site 395494005689 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 395494005690 nucleotide binding region [chemical binding]; other site 395494005691 ATP-binding site [chemical binding]; other site 395494005692 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 395494005693 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 395494005694 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 395494005695 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 395494005696 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 395494005697 dimerization interface [polypeptide binding]; other site 395494005698 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 395494005699 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 395494005700 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395494005701 Cytochrome c; Region: Cytochrom_C; cl11414 395494005702 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 395494005703 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 395494005704 Sulfate transporter family; Region: Sulfate_transp; pfam00916 395494005705 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 395494005706 peptide chain release factor 2; Validated; Region: prfB; PRK00578 395494005707 This domain is found in peptide chain release factors; Region: PCRF; smart00937 395494005708 RF-1 domain; Region: RF-1; pfam00472 395494005709 HDOD domain; Region: HDOD; pfam08668 395494005710 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 395494005711 homodimer interface [polypeptide binding]; other site 395494005712 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 395494005713 active site pocket [active] 395494005714 putative phosphoketolase; Provisional; Region: PRK05261 395494005715 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 395494005716 TPP-binding site; other site 395494005717 XFP C-terminal domain; Region: XFP_C; pfam09363 395494005718 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 395494005719 propionate/acetate kinase; Provisional; Region: PRK12379 395494005720 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 395494005721 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494005722 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395494005723 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494005724 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395494005725 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395494005726 Walker A/P-loop; other site 395494005727 ATP binding site [chemical binding]; other site 395494005728 Q-loop/lid; other site 395494005729 ABC transporter signature motif; other site 395494005730 Walker B; other site 395494005731 D-loop; other site 395494005732 H-loop/switch region; other site 395494005733 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395494005734 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 395494005735 FtsX-like permease family; Region: FtsX; pfam02687 395494005736 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 395494005737 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 395494005738 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 395494005739 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 395494005740 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 395494005741 binding surface 395494005742 TPR motif; other site 395494005743 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 395494005744 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 395494005745 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 395494005746 catalytic residues [active] 395494005747 central insert; other site 395494005748 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 395494005749 CcmE; Region: CcmE; pfam03100 395494005750 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 395494005751 CcmB protein; Region: CcmB; pfam03379 395494005752 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 395494005753 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395494005754 Walker A/P-loop; other site 395494005755 ATP binding site [chemical binding]; other site 395494005756 Q-loop/lid; other site 395494005757 ABC transporter signature motif; other site 395494005758 Walker B; other site 395494005759 D-loop; other site 395494005760 H-loop/switch region; other site 395494005761 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 395494005762 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 395494005763 NAD binding site [chemical binding]; other site 395494005764 homotetramer interface [polypeptide binding]; other site 395494005765 homodimer interface [polypeptide binding]; other site 395494005766 substrate binding site [chemical binding]; other site 395494005767 active site 395494005768 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 395494005769 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005770 active site 395494005771 phosphorylation site [posttranslational modification] 395494005772 intermolecular recognition site; other site 395494005773 dimerization interface [polypeptide binding]; other site 395494005774 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 395494005775 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494005776 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 395494005777 ATP binding site [chemical binding]; other site 395494005778 Mg2+ binding site [ion binding]; other site 395494005779 G-X-G motif; other site 395494005780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005781 Response regulator receiver domain; Region: Response_reg; pfam00072 395494005782 active site 395494005783 phosphorylation site [posttranslational modification] 395494005784 intermolecular recognition site; other site 395494005785 dimerization interface [polypeptide binding]; other site 395494005786 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 395494005787 binding surface 395494005788 TPR motif; other site 395494005789 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 395494005790 RNA/DNA hybrid binding site [nucleotide binding]; other site 395494005791 active site 395494005792 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 395494005793 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 395494005794 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 395494005795 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 395494005796 active site 395494005797 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 395494005798 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 395494005799 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 395494005800 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 395494005801 trimer interface [polypeptide binding]; other site 395494005802 active site 395494005803 UDP-GlcNAc binding site [chemical binding]; other site 395494005804 lipid binding site [chemical binding]; lipid-binding site 395494005805 periplasmic chaperone; Provisional; Region: PRK10780 395494005806 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 395494005807 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 395494005808 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395494005809 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395494005810 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395494005811 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395494005812 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395494005813 Surface antigen; Region: Bac_surface_Ag; pfam01103 395494005814 zinc metallopeptidase RseP; Provisional; Region: PRK10779 395494005815 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 395494005816 active site 395494005817 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 395494005818 protein binding site [polypeptide binding]; other site 395494005819 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 395494005820 protein binding site [polypeptide binding]; other site 395494005821 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 395494005822 putative substrate binding region [chemical binding]; other site 395494005823 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 395494005824 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 395494005825 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 395494005826 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 395494005827 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 395494005828 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 395494005829 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 395494005830 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 395494005831 catalytic residue [active] 395494005832 putative FPP diphosphate binding site; other site 395494005833 putative FPP binding hydrophobic cleft; other site 395494005834 dimer interface [polypeptide binding]; other site 395494005835 putative IPP diphosphate binding site; other site 395494005836 ribosome recycling factor; Reviewed; Region: frr; PRK00083 395494005837 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 395494005838 hinge region; other site 395494005839 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 395494005840 putative nucleotide binding site [chemical binding]; other site 395494005841 uridine monophosphate binding site [chemical binding]; other site 395494005842 homohexameric interface [polypeptide binding]; other site 395494005843 elongation factor Ts; Provisional; Region: tsf; PRK09377 395494005844 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 395494005845 Elongation factor TS; Region: EF_TS; pfam00889 395494005846 Elongation factor TS; Region: EF_TS; pfam00889 395494005847 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 395494005848 rRNA interaction site [nucleotide binding]; other site 395494005849 S8 interaction site; other site 395494005850 putative laminin-1 binding site; other site 395494005851 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 395494005852 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 395494005853 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 395494005854 Walker A motif; other site 395494005855 ATP binding site [chemical binding]; other site 395494005856 Walker B motif; other site 395494005857 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 395494005858 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 395494005859 FMN binding site [chemical binding]; other site 395494005860 active site 395494005861 catalytic residues [active] 395494005862 substrate binding site [chemical binding]; other site 395494005863 multiple promoter invertase; Provisional; Region: mpi; PRK13413 395494005864 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 395494005865 catalytic residues [active] 395494005866 catalytic nucleophile [active] 395494005867 Presynaptic Site I dimer interface [polypeptide binding]; other site 395494005868 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 395494005869 Synaptic Flat tetramer interface [polypeptide binding]; other site 395494005870 Synaptic Site I dimer interface [polypeptide binding]; other site 395494005871 DNA binding site [nucleotide binding] 395494005872 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494005873 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 395494005874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 395494005875 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 395494005876 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 395494005877 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 395494005878 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 395494005879 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 395494005880 Transposase; Region: HTH_Tnp_1; pfam01527 395494005881 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395494005882 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 395494005883 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395494005884 active site 395494005885 catalytic tetrad [active] 395494005886 HAMP domain; Region: HAMP; pfam00672 395494005887 dimerization interface [polypeptide binding]; other site 395494005888 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494005889 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005890 metal binding site [ion binding]; metal-binding site 395494005891 active site 395494005892 I-site; other site 395494005893 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494005894 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494005895 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494005896 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 395494005897 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395494005898 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 395494005899 Clp amino terminal domain; Region: Clp_N; pfam02861 395494005900 Clp amino terminal domain; Region: Clp_N; pfam02861 395494005901 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 395494005902 Walker A motif; other site 395494005903 ATP binding site [chemical binding]; other site 395494005904 Walker B motif; other site 395494005905 arginine finger; other site 395494005906 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 395494005907 Walker A motif; other site 395494005908 ATP binding site [chemical binding]; other site 395494005909 Walker B motif; other site 395494005910 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 395494005911 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 395494005912 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 395494005913 dimerization interface [polypeptide binding]; other site 395494005914 active site 395494005915 thioredoxin 2; Provisional; Region: PRK10996 395494005916 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 395494005917 catalytic residues [active] 395494005918 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395494005919 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494005920 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494005921 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 395494005922 S-adenosylmethionine binding site [chemical binding]; other site 395494005923 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 395494005924 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 395494005925 synthetase active site [active] 395494005926 NTP binding site [chemical binding]; other site 395494005927 metal binding site [ion binding]; metal-binding site 395494005928 Predicted permeases [General function prediction only]; Region: COG0679 395494005929 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 395494005930 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 395494005931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494005932 catalytic residue [active] 395494005933 homoserine dehydrogenase; Provisional; Region: PRK06349 395494005934 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 395494005935 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 395494005936 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 395494005937 aminotransferase AlaT; Validated; Region: PRK09265 395494005938 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 395494005939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494005940 homodimer interface [polypeptide binding]; other site 395494005941 catalytic residue [active] 395494005942 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 395494005943 MoxR-like ATPases [General function prediction only]; Region: COG0714 395494005944 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 395494005945 Walker A motif; other site 395494005946 ATP binding site [chemical binding]; other site 395494005947 Walker B motif; other site 395494005948 arginine finger; other site 395494005949 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 395494005950 Protein of unknown function DUF58; Region: DUF58; pfam01882 395494005951 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 395494005952 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 395494005953 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395494005954 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 395494005955 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 395494005956 active site 395494005957 integrase; Provisional; Region: PRK09692 395494005958 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 395494005959 active site 395494005960 Int/Topo IB signature motif; other site 395494005961 FRG domain; Region: FRG; cl07460 395494005962 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395494005963 Sel1-like repeats; Region: SEL1; smart00671 395494005964 Sel1-like repeats; Region: SEL1; smart00671 395494005965 Sel1-like repeats; Region: SEL1; smart00671 395494005966 Sel1-like repeats; Region: SEL1; smart00671 395494005967 Sel1-like repeats; Region: SEL1; smart00671 395494005968 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395494005969 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 395494005970 non-specific DNA binding site [nucleotide binding]; other site 395494005971 salt bridge; other site 395494005972 sequence-specific DNA binding site [nucleotide binding]; other site 395494005973 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 395494005974 FIC domain binding interface [polypeptide binding]; other site 395494005975 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 395494005976 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 395494005977 putative DNA binding site [nucleotide binding]; other site 395494005978 helix_turn_helix, Arsenical Resistance Operon Repressor; Region: HTH_ARSR; smart00418 395494005979 putative Zn2+ binding site [ion binding]; other site 395494005980 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395494005981 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395494005982 FliW protein; Region: FliW; cl00740 395494005983 YccA-like proteins; Region: YccA_like; cd10433 395494005984 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 395494005985 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 395494005986 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 395494005987 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 395494005988 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 395494005989 RNA binding site [nucleotide binding]; other site 395494005990 gliding motility-associated protein GldC; Region: GldC; TIGR03515 395494005991 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 395494005992 PAS domain S-box; Region: sensory_box; TIGR00229 395494005993 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 395494005994 putative active site [active] 395494005995 heme pocket [chemical binding]; other site 395494005996 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494005997 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005998 metal binding site [ion binding]; metal-binding site 395494005999 active site 395494006000 I-site; other site 395494006001 Response regulator receiver domain; Region: Response_reg; pfam00072 395494006002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006003 active site 395494006004 phosphorylation site [posttranslational modification] 395494006005 intermolecular recognition site; other site 395494006006 dimerization interface [polypeptide binding]; other site 395494006007 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 395494006008 putative binding surface; other site 395494006009 active site 395494006010 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 395494006011 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 395494006012 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494006013 putative active site [active] 395494006014 heme pocket [chemical binding]; other site 395494006015 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 395494006016 dimer interface [polypeptide binding]; other site 395494006017 phosphorylation site [posttranslational modification] 395494006018 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 395494006019 ATP binding site [chemical binding]; other site 395494006020 Mg2+ binding site [ion binding]; other site 395494006021 G-X-G motif; other site 395494006022 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 395494006023 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 395494006024 TRAM domain; Region: TRAM; cl01282 395494006025 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 395494006026 S-adenosylmethionine binding site [chemical binding]; other site 395494006027 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 395494006028 active site 395494006029 catalytic site [active] 395494006030 substrate binding site [chemical binding]; other site 395494006031 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 395494006032 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395494006033 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 395494006034 chromosome condensation membrane protein; Provisional; Region: PRK14196 395494006035 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 395494006036 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 395494006037 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 395494006038 dimer interface [polypeptide binding]; other site 395494006039 active site 395494006040 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 395494006041 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 395494006042 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395494006043 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 395494006044 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 395494006045 substrate binding site [chemical binding]; other site 395494006046 oxyanion hole (OAH) forming residues; other site 395494006047 trimer interface [polypeptide binding]; other site 395494006048 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 395494006049 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 395494006050 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 395494006051 acyl-activating enzyme (AAE) consensus motif; other site 395494006052 putative AMP binding site [chemical binding]; other site 395494006053 putative active site [active] 395494006054 putative CoA binding site [chemical binding]; other site 395494006055 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 395494006056 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 395494006057 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 395494006058 active site 395494006059 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 395494006060 DNA repair protein RadA; Provisional; Region: PRK11823 395494006061 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 395494006062 Walker A motif/ATP binding site; other site 395494006063 ATP binding site [chemical binding]; other site 395494006064 Walker B motif; other site 395494006065 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 395494006066 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 395494006067 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 395494006068 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 395494006069 NMT1/THI5 like; Region: NMT1; pfam09084 395494006070 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395494006071 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 395494006072 substrate binding pocket [chemical binding]; other site 395494006073 membrane-bound complex binding site; other site 395494006074 hinge residues; other site 395494006075 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494006076 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 395494006077 putative active site [active] 395494006078 heme pocket [chemical binding]; other site 395494006079 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 395494006080 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494006081 putative active site [active] 395494006082 heme pocket [chemical binding]; other site 395494006083 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 395494006084 putative active site [active] 395494006085 heme pocket [chemical binding]; other site 395494006086 PAS domain S-box; Region: sensory_box; TIGR00229 395494006087 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 395494006088 putative active site [active] 395494006089 heme pocket [chemical binding]; other site 395494006090 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494006091 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006092 metal binding site [ion binding]; metal-binding site 395494006093 active site 395494006094 I-site; other site 395494006095 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 395494006096 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 395494006097 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 395494006098 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 395494006099 DctM-like transporters; Region: DctM; pfam06808 395494006100 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 395494006101 PAS fold; Region: PAS_3; pfam08447 395494006102 putative active site [active] 395494006103 heme pocket [chemical binding]; other site 395494006104 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494006105 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006106 metal binding site [ion binding]; metal-binding site 395494006107 active site 395494006108 I-site; other site 395494006109 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 395494006110 GIY-YIG motif/motif A; other site 395494006111 putative active site [active] 395494006112 putative metal binding site [ion binding]; other site 395494006113 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 395494006114 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 395494006115 putative active site [active] 395494006116 catalytic triad [active] 395494006117 putative dimer interface [polypeptide binding]; other site 395494006118 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395494006119 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 395494006120 RNA binding surface [nucleotide binding]; other site 395494006121 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 395494006122 active site 395494006123 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 395494006124 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 395494006125 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395494006126 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494006127 dimer interface [polypeptide binding]; other site 395494006128 putative CheW interface [polypeptide binding]; other site 395494006129 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 395494006130 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 395494006131 dimerization interface [polypeptide binding]; other site 395494006132 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 395494006133 PAS domain; Region: PAS_9; pfam13426 395494006134 putative active site [active] 395494006135 heme pocket [chemical binding]; other site 395494006136 PAS domain S-box; Region: sensory_box; TIGR00229 395494006137 PAS domain; Region: PAS_8; pfam13188 395494006138 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494006139 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006140 metal binding site [ion binding]; metal-binding site 395494006141 active site 395494006142 I-site; other site 395494006143 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 395494006144 Response regulator receiver domain; Region: Response_reg; pfam00072 395494006145 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006146 active site 395494006147 phosphorylation site [posttranslational modification] 395494006148 intermolecular recognition site; other site 395494006149 dimerization interface [polypeptide binding]; other site 395494006150 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494006151 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494006152 dimer interface [polypeptide binding]; other site 395494006153 putative CheW interface [polypeptide binding]; other site 395494006154 PAS domain S-box; Region: sensory_box; TIGR00229 395494006155 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 395494006156 putative active site [active] 395494006157 heme pocket [chemical binding]; other site 395494006158 PAS domain S-box; Region: sensory_box; TIGR00229 395494006159 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494006160 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006161 metal binding site [ion binding]; metal-binding site 395494006162 active site 395494006163 I-site; other site 395494006164 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 395494006165 PAS fold; Region: PAS_3; pfam08447 395494006166 PAS fold; Region: PAS_4; pfam08448 395494006167 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 395494006168 putative active site [active] 395494006169 heme pocket [chemical binding]; other site 395494006170 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 395494006171 PAS fold; Region: PAS_3; pfam08447 395494006172 putative active site [active] 395494006173 heme pocket [chemical binding]; other site 395494006174 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395494006175 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 395494006176 DNA binding residues [nucleotide binding] 395494006177 dimerization interface [polypeptide binding]; other site 395494006178 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494006179 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494006180 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494006181 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 395494006182 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 395494006183 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395494006184 Coenzyme A binding pocket [chemical binding]; other site 395494006185 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 395494006186 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494006187 Zn2+ binding site [ion binding]; other site 395494006188 Mg2+ binding site [ion binding]; other site 395494006189 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 395494006190 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395494006191 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 395494006192 catalytic residues [active] 395494006193 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 395494006194 putative inner membrane protein; Provisional; Region: PRK11099 395494006195 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 395494006196 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 395494006197 DNA binding residues [nucleotide binding] 395494006198 dimer interface [polypeptide binding]; other site 395494006199 mercury binding site [ion binding]; other site 395494006200 putative mercuric transport protein; Provisional; Region: PRK13751 395494006201 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 395494006202 metal-binding site [ion binding] 395494006203 Membrane transport protein MerF; Region: Transport_MerF; pfam11431 395494006204 putative mercuric reductase; Provisional; Region: PRK14727 395494006205 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494006206 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395494006207 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 395494006208 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 395494006209 Phosphate transporter family; Region: PHO4; pfam01384 395494006210 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 395494006211 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395494006212 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 395494006213 S-adenosylmethionine binding site [chemical binding]; other site 395494006214 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 395494006215 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 395494006216 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 395494006217 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 395494006218 putative active site [active] 395494006219 glucokinase, proteobacterial type; Region: glk; TIGR00749 395494006220 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 395494006221 nucleotide binding site [chemical binding]; other site 395494006222 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 395494006223 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 395494006224 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 395494006225 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 395494006226 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 395494006227 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 395494006228 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 395494006229 transaldolase-like protein; Provisional; Region: PTZ00411 395494006230 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 395494006231 active site 395494006232 dimer interface [polypeptide binding]; other site 395494006233 catalytic residue [active] 395494006234 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 395494006235 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 395494006236 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 395494006237 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 395494006238 Probable Catalytic site; other site 395494006239 Uncharacterized conserved protein [Function unknown]; Region: COG0398 395494006240 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 395494006241 mercuric reductase; Validated; Region: PRK06370 395494006242 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395494006243 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494006244 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395494006245 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 395494006246 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 395494006247 FeS/SAM binding site; other site 395494006248 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 395494006249 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 395494006250 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395494006251 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 395494006252 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395494006253 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395494006254 dimer interface [polypeptide binding]; other site 395494006255 conserved gate region; other site 395494006256 putative PBP binding loops; other site 395494006257 ABC-ATPase subunit interface; other site 395494006258 sulfate transport protein; Provisional; Region: cysT; CHL00187 395494006259 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395494006260 dimer interface [polypeptide binding]; other site 395494006261 conserved gate region; other site 395494006262 putative PBP binding loops; other site 395494006263 ABC-ATPase subunit interface; other site 395494006264 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 395494006265 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 395494006266 Walker A/P-loop; other site 395494006267 ATP binding site [chemical binding]; other site 395494006268 Q-loop/lid; other site 395494006269 ABC transporter signature motif; other site 395494006270 Walker B; other site 395494006271 D-loop; other site 395494006272 H-loop/switch region; other site 395494006273 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 395494006274 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395494006275 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 395494006276 substrate binding site [chemical binding]; other site 395494006277 dimerization interface [polypeptide binding]; other site 395494006278 Putative zinc-finger; Region: zf-HC2; pfam13490 395494006279 RNA polymerase sigma factor; Provisional; Region: PRK12544 395494006280 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395494006281 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 395494006282 DNA binding residues [nucleotide binding] 395494006283 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 395494006284 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 395494006285 Cupin; Region: Cupin_6; pfam12852 395494006286 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395494006287 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395494006288 Uncharacterized conserved protein [Function unknown]; Region: COG2128 395494006289 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395494006290 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 395494006291 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 395494006292 putative catalytic residues [active] 395494006293 Domain of unknown function (DUF427); Region: DUF427; pfam04248 395494006294 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 395494006295 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 395494006296 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 395494006297 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 395494006298 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395494006299 EamA-like transporter family; Region: EamA; pfam00892 395494006300 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 395494006301 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 395494006302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494006303 homodimer interface [polypeptide binding]; other site 395494006304 catalytic residue [active] 395494006305 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395494006306 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 395494006307 non-specific DNA binding site [nucleotide binding]; other site 395494006308 salt bridge; other site 395494006309 sequence-specific DNA binding site [nucleotide binding]; other site 395494006310 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 395494006311 active site 395494006312 DNA binding site [nucleotide binding] 395494006313 Int/Topo IB signature motif; other site 395494006314 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 395494006315 IHF dimer interface [polypeptide binding]; other site 395494006316 IHF - DNA interface [nucleotide binding]; other site 395494006317 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 395494006318 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 395494006319 active site 395494006320 interdomain interaction site; other site 395494006321 putative metal-binding site [ion binding]; other site 395494006322 nucleotide binding site [chemical binding]; other site 395494006323 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 395494006324 domain I; other site 395494006325 DNA binding groove [nucleotide binding] 395494006326 phosphate binding site [ion binding]; other site 395494006327 domain II; other site 395494006328 domain III; other site 395494006329 nucleotide binding site [chemical binding]; other site 395494006330 catalytic site [active] 395494006331 domain IV; other site 395494006332 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 395494006333 active site 395494006334 DNA binding site [nucleotide binding] 395494006335 Int/Topo IB signature motif; other site 395494006336 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 395494006337 dimerization interface [polypeptide binding]; other site 395494006338 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 395494006339 PAS domain; Region: PAS_9; pfam13426 395494006340 putative active site [active] 395494006341 heme pocket [chemical binding]; other site 395494006342 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494006343 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006344 metal binding site [ion binding]; metal-binding site 395494006345 active site 395494006346 I-site; other site 395494006347 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 395494006348 replicative DNA helicase; Region: DnaB; TIGR00665 395494006349 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 395494006350 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 395494006351 Walker A motif; other site 395494006352 ATP binding site [chemical binding]; other site 395494006353 Walker B motif; other site 395494006354 DNA binding loops [nucleotide binding] 395494006355 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494006356 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 395494006357 putative active site [active] 395494006358 heme pocket [chemical binding]; other site 395494006359 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 395494006360 dimer interface [polypeptide binding]; other site 395494006361 phosphorylation site [posttranslational modification] 395494006362 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 395494006363 ATP binding site [chemical binding]; other site 395494006364 Mg2+ binding site [ion binding]; other site 395494006365 G-X-G motif; other site 395494006366 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 395494006367 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 395494006368 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 395494006369 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 395494006370 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 395494006371 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 395494006372 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006373 phosphorylation site [posttranslational modification] 395494006374 intermolecular recognition site; other site 395494006375 CheB methylesterase; Region: CheB_methylest; pfam01339 395494006376 CheD chemotactic sensory transduction; Region: CheD; cl00810 395494006377 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 395494006378 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395494006379 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 395494006380 HDOD domain; Region: HDOD; pfam08668 395494006381 CheD chemotactic sensory transduction; Region: CheD; cl00810 395494006382 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494006383 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 395494006384 dimerization interface [polypeptide binding]; other site 395494006385 PAS fold; Region: PAS_4; pfam08448 395494006386 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 395494006387 putative active site [active] 395494006388 heme pocket [chemical binding]; other site 395494006389 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 395494006390 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494006391 putative active site [active] 395494006392 heme pocket [chemical binding]; other site 395494006393 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 395494006394 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 395494006395 putative active site [active] 395494006396 heme pocket [chemical binding]; other site 395494006397 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395494006398 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 395494006399 putative active site [active] 395494006400 heme pocket [chemical binding]; other site 395494006401 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 395494006402 putative active site [active] 395494006403 heme pocket [chemical binding]; other site 395494006404 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006405 metal binding site [ion binding]; metal-binding site 395494006406 active site 395494006407 I-site; other site 395494006408 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 395494006409 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 395494006410 putative CheA interaction surface; other site 395494006411 CHASE3 domain; Region: CHASE3; cl05000 395494006412 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395494006413 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 395494006414 dimerization interface [polypeptide binding]; other site 395494006415 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494006416 dimer interface [polypeptide binding]; other site 395494006417 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395494006418 putative CheW interface [polypeptide binding]; other site 395494006419 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 395494006420 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 395494006421 putative binding surface; other site 395494006422 active site 395494006423 P2 response regulator binding domain; Region: P2; pfam07194 395494006424 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395494006425 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 395494006426 ATP binding site [chemical binding]; other site 395494006427 Mg2+ binding site [ion binding]; other site 395494006428 G-X-G motif; other site 395494006429 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 395494006430 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 395494006431 anti sigma factor interaction site; other site 395494006432 regulatory phosphorylation site [posttranslational modification]; other site 395494006433 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494006434 Response regulator receiver domain; Region: Response_reg; pfam00072 395494006435 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006436 active site 395494006437 phosphorylation site [posttranslational modification] 395494006438 intermolecular recognition site; other site 395494006439 dimerization interface [polypeptide binding]; other site 395494006440 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 395494006441 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 395494006442 CysD dimerization site [polypeptide binding]; other site 395494006443 G1 box; other site 395494006444 putative GEF interaction site [polypeptide binding]; other site 395494006445 GTP/Mg2+ binding site [chemical binding]; other site 395494006446 Switch I region; other site 395494006447 G2 box; other site 395494006448 G3 box; other site 395494006449 Switch II region; other site 395494006450 G4 box; other site 395494006451 G5 box; other site 395494006452 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 395494006453 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 395494006454 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 395494006455 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 395494006456 Active Sites [active] 395494006457 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 395494006458 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 395494006459 Active Sites [active] 395494006460 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 395494006461 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 395494006462 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395494006463 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395494006464 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395494006465 Bacitracin resistance protein BacA; Region: BacA; cl00858 395494006466 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 395494006467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395494006468 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 395494006469 substrate binding site [chemical binding]; other site 395494006470 dimerization interface [polypeptide binding]; other site 395494006471 Response regulator receiver domain; Region: Response_reg; pfam00072 395494006472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006473 active site 395494006474 phosphorylation site [posttranslational modification] 395494006475 intermolecular recognition site; other site 395494006476 dimerization interface [polypeptide binding]; other site 395494006477 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 395494006478 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 395494006479 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 395494006480 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 395494006481 acetylornithine aminotransferase; Provisional; Region: PRK02627 395494006482 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 395494006483 inhibitor-cofactor binding pocket; inhibition site 395494006484 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494006485 catalytic residue [active] 395494006486 ornithine carbamoyltransferase; Provisional; Region: PRK00779 395494006487 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395494006488 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 395494006489 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 395494006490 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 395494006491 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 395494006492 Predicted thioesterase [General function prediction only]; Region: COG5496 395494006493 argininosuccinate synthase; Provisional; Region: PRK13820 395494006494 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 395494006495 ANP binding site [chemical binding]; other site 395494006496 Substrate Binding Site II [chemical binding]; other site 395494006497 Substrate Binding Site I [chemical binding]; other site 395494006498 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 395494006499 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 395494006500 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 395494006501 DJ-1 family protein; Region: not_thiJ; TIGR01383 395494006502 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 395494006503 conserved cys residue [active] 395494006504 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 395494006505 S-adenosylmethionine binding site [chemical binding]; other site 395494006506 OsmC-like protein; Region: OsmC; pfam02566 395494006507 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 395494006508 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 395494006509 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 395494006510 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 395494006511 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 395494006512 Cytochrome c; Region: Cytochrom_C; cl11414 395494006513 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 395494006514 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 395494006515 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 395494006516 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 395494006517 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 395494006518 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395494006519 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494006520 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 395494006521 phosphorylation site [posttranslational modification] 395494006522 dimer interface [polypeptide binding]; other site 395494006523 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 395494006524 ATP binding site [chemical binding]; other site 395494006525 Mg2+ binding site [ion binding]; other site 395494006526 G-X-G motif; other site 395494006527 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395494006528 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006529 active site 395494006530 phosphorylation site [posttranslational modification] 395494006531 intermolecular recognition site; other site 395494006532 dimerization interface [polypeptide binding]; other site 395494006533 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 395494006534 Walker A motif; other site 395494006535 ATP binding site [chemical binding]; other site 395494006536 Walker B motif; other site 395494006537 arginine finger; other site 395494006538 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395494006539 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 395494006540 phosphoserine phosphatase SerB; Region: serB; TIGR00338 395494006541 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 395494006542 motif II; other site 395494006543 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 395494006544 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 395494006545 active site 395494006546 dimer interface [polypeptide binding]; other site 395494006547 effector binding site; other site 395494006548 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494006549 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 395494006550 dimerization interface [polypeptide binding]; other site 395494006551 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 395494006552 dimer interface [polypeptide binding]; other site 395494006553 phosphorylation site [posttranslational modification] 395494006554 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 395494006555 ATP binding site [chemical binding]; other site 395494006556 Mg2+ binding site [ion binding]; other site 395494006557 G-X-G motif; other site 395494006558 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395494006559 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006560 active site 395494006561 phosphorylation site [posttranslational modification] 395494006562 intermolecular recognition site; other site 395494006563 dimerization interface [polypeptide binding]; other site 395494006564 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 395494006565 DNA binding site [nucleotide binding] 395494006566 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 395494006567 dimer interface [polypeptide binding]; other site 395494006568 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 395494006569 EF-hand domain pair; Region: EF_hand_5; pfam13499 395494006570 Ca2+ binding site [ion binding]; other site 395494006571 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 395494006572 Ca2+ binding site [ion binding]; other site 395494006573 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 395494006574 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 395494006575 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494006576 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 395494006577 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 395494006578 motif II; other site 395494006579 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 395494006580 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 395494006581 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 395494006582 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 395494006583 dimer interface [polypeptide binding]; other site 395494006584 FMN binding site [chemical binding]; other site 395494006585 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 395494006586 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 395494006587 Helix-turn-helix domain; Region: HTH_17; cl17695 395494006588 Short C-terminal domain; Region: SHOCT; pfam09851 395494006589 hypothetical protein; Region: PHA00672 395494006590 replicative DNA helicase; Region: DnaB; TIGR00665 395494006591 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 395494006592 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 395494006593 Walker A motif; other site 395494006594 ATP binding site [chemical binding]; other site 395494006595 Walker B motif; other site 395494006596 DNA binding loops [nucleotide binding] 395494006597 Helix-turn-helix domain; Region: HTH_36; pfam13730 395494006598 Helix-turn-helix domain; Region: HTH_39; pfam14090 395494006599 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 395494006600 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 395494006601 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 395494006602 sequence-specific DNA binding site [nucleotide binding]; other site 395494006603 salt bridge; other site 395494006604 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 395494006605 integrase; Provisional; Region: PRK09692 395494006606 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 395494006607 active site 395494006608 Int/Topo IB signature motif; other site 395494006609 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 395494006610 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 395494006611 catalytic triad [active] 395494006612 ABC transporter ATPase component; Reviewed; Region: PRK11147 395494006613 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395494006614 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395494006615 ABC transporter; Region: ABC_tran_2; pfam12848 395494006616 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395494006617 Caspase domain; Region: Peptidase_C14; pfam00656 395494006618 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 395494006619 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395494006620 metal binding triad; other site 395494006621 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395494006622 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395494006623 metal binding triad; other site 395494006624 TIGR02099 family protein; Region: TIGR02099 395494006625 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 395494006626 nitrilase; Region: PLN02798 395494006627 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 395494006628 putative active site [active] 395494006629 catalytic triad [active] 395494006630 dimer interface [polypeptide binding]; other site 395494006631 protease TldD; Provisional; Region: tldD; PRK10735 395494006632 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 395494006633 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 395494006634 active site 395494006635 substrate binding site [chemical binding]; other site 395494006636 Mg2+ binding site [ion binding]; other site 395494006637 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395494006638 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 395494006639 ligand binding site [chemical binding]; other site 395494006640 flexible hinge region; other site 395494006641 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 395494006642 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 395494006643 active site 395494006644 Riboflavin kinase; Region: Flavokinase; smart00904 395494006645 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 395494006646 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395494006647 active site 395494006648 HIGH motif; other site 395494006649 nucleotide binding site [chemical binding]; other site 395494006650 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 395494006651 active site 395494006652 KMSKS motif; other site 395494006653 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 395494006654 tRNA binding surface [nucleotide binding]; other site 395494006655 anticodon binding site; other site 395494006656 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 395494006657 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 395494006658 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 395494006659 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 395494006660 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395494006661 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 395494006662 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 395494006663 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 395494006664 putative FMN binding site [chemical binding]; other site 395494006665 fumarate hydratase; Reviewed; Region: fumC; PRK00485 395494006666 Class II fumarases; Region: Fumarase_classII; cd01362 395494006667 active site 395494006668 tetramer interface [polypeptide binding]; other site 395494006669 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 395494006670 PAS domain; Region: PAS_9; pfam13426 395494006671 putative active site [active] 395494006672 heme pocket [chemical binding]; other site 395494006673 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 395494006674 PAS domain; Region: PAS_9; pfam13426 395494006675 putative active site [active] 395494006676 heme pocket [chemical binding]; other site 395494006677 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494006678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006679 metal binding site [ion binding]; metal-binding site 395494006680 active site 395494006681 I-site; other site 395494006682 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395494006683 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006684 active site 395494006685 phosphorylation site [posttranslational modification] 395494006686 intermolecular recognition site; other site 395494006687 dimerization interface [polypeptide binding]; other site 395494006688 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 395494006689 DNA binding residues [nucleotide binding] 395494006690 dimerization interface [polypeptide binding]; other site 395494006691 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 395494006692 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494006693 putative active site [active] 395494006694 heme pocket [chemical binding]; other site 395494006695 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494006696 GAF domain; Region: GAF; pfam01590 395494006697 PAS fold; Region: PAS_4; pfam08448 395494006698 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 395494006699 putative active site [active] 395494006700 heme pocket [chemical binding]; other site 395494006701 PAS domain S-box; Region: sensory_box; TIGR00229 395494006702 PAS fold; Region: PAS_4; pfam08448 395494006703 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 395494006704 putative active site [active] 395494006705 heme pocket [chemical binding]; other site 395494006706 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 395494006707 Histidine kinase; Region: HisKA_3; pfam07730 395494006708 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 395494006709 ATP binding site [chemical binding]; other site 395494006710 Mg2+ binding site [ion binding]; other site 395494006711 G-X-G motif; other site 395494006712 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494006713 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395494006714 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494006715 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395494006716 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395494006717 Walker A/P-loop; other site 395494006718 ATP binding site [chemical binding]; other site 395494006719 Q-loop/lid; other site 395494006720 ABC transporter signature motif; other site 395494006721 Walker B; other site 395494006722 D-loop; other site 395494006723 H-loop/switch region; other site 395494006724 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395494006725 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 395494006726 FtsX-like permease family; Region: FtsX; pfam02687 395494006727 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395494006728 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 395494006729 CobD/Cbib protein; Region: CobD_Cbib; cl00561 395494006730 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 395494006731 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 395494006732 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 395494006733 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 395494006734 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 395494006735 feedback inhibition sensing region; other site 395494006736 homohexameric interface [polypeptide binding]; other site 395494006737 nucleotide binding site [chemical binding]; other site 395494006738 N-acetyl-L-glutamate binding site [chemical binding]; other site 395494006739 Protein of unknown function (DUF461); Region: DUF461; pfam04314 395494006740 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494006741 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 395494006742 dimer interface [polypeptide binding]; other site 395494006743 phosphorylation site [posttranslational modification] 395494006744 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 395494006745 ATP binding site [chemical binding]; other site 395494006746 G-X-G motif; other site 395494006747 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006748 Response regulator receiver domain; Region: Response_reg; pfam00072 395494006749 active site 395494006750 phosphorylation site [posttranslational modification] 395494006751 intermolecular recognition site; other site 395494006752 dimerization interface [polypeptide binding]; other site 395494006753 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395494006754 HDOD domain; Region: HDOD; pfam08668 395494006755 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494006756 Zn2+ binding site [ion binding]; other site 395494006757 Mg2+ binding site [ion binding]; other site 395494006758 HDOD domain; Region: HDOD; pfam08668 395494006759 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494006760 Zn2+ binding site [ion binding]; other site 395494006761 Mg2+ binding site [ion binding]; other site 395494006762 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 395494006763 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 395494006764 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 395494006765 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 395494006766 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 395494006767 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 395494006768 homodimer interface [polypeptide binding]; other site 395494006769 substrate-cofactor binding pocket; other site 395494006770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494006771 catalytic residue [active] 395494006772 Protein of unknown function (DUF493); Region: DUF493; pfam04359 395494006773 lipoate-protein ligase B; Provisional; Region: PRK14342 395494006774 lipoyl synthase; Provisional; Region: PRK05481 395494006775 Cytochrome c; Region: Cytochrom_C; cl11414 395494006776 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 395494006777 RNB domain; Region: RNB; pfam00773 395494006778 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 395494006779 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 395494006780 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 395494006781 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 395494006782 putative ligand binding site [chemical binding]; other site 395494006783 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 395494006784 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 395494006785 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 395494006786 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 395494006787 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 395494006788 shikimate binding site; other site 395494006789 NAD(P) binding site [chemical binding]; other site 395494006790 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 395494006791 Transglycosylase; Region: Transgly; cl17702 395494006792 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 395494006793 putative active site [active] 395494006794 heme pocket [chemical binding]; other site 395494006795 HAMP domain; Region: HAMP; pfam00672 395494006796 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494006797 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494006798 dimer interface [polypeptide binding]; other site 395494006799 putative CheW interface [polypeptide binding]; other site 395494006800 diaminopimelate decarboxylase; Region: lysA; TIGR01048 395494006801 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 395494006802 active site 395494006803 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395494006804 substrate binding site [chemical binding]; other site 395494006805 catalytic residues [active] 395494006806 dimer interface [polypeptide binding]; other site 395494006807 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 395494006808 frataxin-like protein; Provisional; Region: cyaY; PRK00446 395494006809 putative iron binding site [ion binding]; other site 395494006810 Protein of unknown function DUF45; Region: DUF45; pfam01863 395494006811 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 395494006812 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395494006813 putative acyl-acceptor binding pocket; other site 395494006814 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 395494006815 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 395494006816 active site 395494006817 motif I; other site 395494006818 motif II; other site 395494006819 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 395494006820 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 395494006821 dimer interface [polypeptide binding]; other site 395494006822 motif 1; other site 395494006823 active site 395494006824 motif 2; other site 395494006825 motif 3; other site 395494006826 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 395494006827 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 395494006828 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 395494006829 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 395494006830 FeS/SAM binding site; other site 395494006831 TRAM domain; Region: TRAM; cl01282 395494006832 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 395494006833 ZIP Zinc transporter; Region: Zip; pfam02535 395494006834 hypothetical protein; Provisional; Region: PRK11239 395494006835 Protein of unknown function, DUF480; Region: DUF480; pfam04337 395494006836 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 395494006837 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 395494006838 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 395494006839 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 395494006840 RNA binding surface [nucleotide binding]; other site 395494006841 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 395494006842 active site 395494006843 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 395494006844 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 395494006845 binding surface 395494006846 TPR motif; other site 395494006847 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 395494006848 nudix motif; other site 395494006849 VacJ like lipoprotein; Region: VacJ; cl01073 395494006850 ABC1 family; Region: ABC1; cl17513 395494006851 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 395494006852 heat shock protein HtpX; Provisional; Region: PRK05457 395494006853 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 395494006854 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395494006855 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 395494006856 RNA binding surface [nucleotide binding]; other site 395494006857 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 395494006858 active site 395494006859 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 395494006860 dimerization interface [polypeptide binding]; other site 395494006861 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 395494006862 PAS domain; Region: PAS_9; pfam13426 395494006863 putative active site [active] 395494006864 heme pocket [chemical binding]; other site 395494006865 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494006866 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006867 metal binding site [ion binding]; metal-binding site 395494006868 active site 395494006869 I-site; other site 395494006870 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 395494006871 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395494006872 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 395494006873 putative ligand binding site [chemical binding]; other site 395494006874 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 395494006875 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 395494006876 Sulfate transporter family; Region: Sulfate_transp; pfam00916 395494006877 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 395494006878 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 395494006879 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 395494006880 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 395494006881 dimer interface [polypeptide binding]; other site 395494006882 ADP-ribose binding site [chemical binding]; other site 395494006883 active site 395494006884 nudix motif; other site 395494006885 metal binding site [ion binding]; metal-binding site 395494006886 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 395494006887 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395494006888 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 395494006889 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395494006890 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 395494006891 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 395494006892 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395494006893 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 395494006894 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 395494006895 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 395494006896 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 395494006897 4Fe-4S binding domain; Region: Fer4; pfam00037 395494006898 4Fe-4S binding domain; Region: Fer4; pfam00037 395494006899 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 395494006900 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 395494006901 NADH dehydrogenase subunit G; Validated; Region: PRK09129 395494006902 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 395494006903 catalytic loop [active] 395494006904 iron binding site [ion binding]; other site 395494006905 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 395494006906 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 395494006907 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 395494006908 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 395494006909 SLBB domain; Region: SLBB; pfam10531 395494006910 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 395494006911 NADH dehydrogenase subunit E; Validated; Region: PRK07539 395494006912 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 395494006913 putative dimer interface [polypeptide binding]; other site 395494006914 [2Fe-2S] cluster binding site [ion binding]; other site 395494006915 NADH dehydrogenase subunit D; Validated; Region: PRK06075 395494006916 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 395494006917 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 395494006918 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 395494006919 NADH dehydrogenase subunit B; Validated; Region: PRK06411 395494006920 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 395494006921 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 395494006922 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494006923 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494006924 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494006925 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 395494006926 integrase; Provisional; Region: PRK09692 395494006927 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 395494006928 active site 395494006929 Int/Topo IB signature motif; other site 395494006930 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 395494006931 triosephosphate isomerase; Provisional; Region: PRK14567 395494006932 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 395494006933 substrate binding site [chemical binding]; other site 395494006934 dimer interface [polypeptide binding]; other site 395494006935 catalytic triad [active] 395494006936 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 395494006937 tetramerization interface [polypeptide binding]; other site 395494006938 active site 395494006939 pantoate--beta-alanine ligase; Region: panC; TIGR00018 395494006940 Pantoate-beta-alanine ligase; Region: PanC; cd00560 395494006941 active site 395494006942 ATP-binding site [chemical binding]; other site 395494006943 pantoate-binding site; other site 395494006944 HXXH motif; other site 395494006945 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 395494006946 oligomerization interface [polypeptide binding]; other site 395494006947 active site 395494006948 metal binding site [ion binding]; metal-binding site 395494006949 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 395494006950 catalytic center binding site [active] 395494006951 ATP binding site [chemical binding]; other site 395494006952 poly(A) polymerase; Region: pcnB; TIGR01942 395494006953 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 395494006954 active site 395494006955 NTP binding site [chemical binding]; other site 395494006956 metal binding triad [ion binding]; metal-binding site 395494006957 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 395494006958 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 395494006959 dihydrodipicolinate reductase; Provisional; Region: PRK00048 395494006960 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 395494006961 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 395494006962 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 395494006963 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 395494006964 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 395494006965 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 395494006966 Walker A/P-loop; other site 395494006967 ATP binding site [chemical binding]; other site 395494006968 Q-loop/lid; other site 395494006969 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 395494006970 ABC transporter signature motif; other site 395494006971 Walker B; other site 395494006972 D-loop; other site 395494006973 H-loop/switch region; other site 395494006974 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 395494006975 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 395494006976 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395494006977 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 395494006978 Walker A/P-loop; other site 395494006979 ATP binding site [chemical binding]; other site 395494006980 Q-loop/lid; other site 395494006981 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395494006982 ABC transporter signature motif; other site 395494006983 Walker B; other site 395494006984 D-loop; other site 395494006985 ABC transporter; Region: ABC_tran_2; pfam12848 395494006986 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395494006987 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 395494006988 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 395494006989 S-adenosylmethionine binding site [chemical binding]; other site 395494006990 Flagellin N-methylase; Region: FliB; pfam03692 395494006991 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395494006992 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494006993 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395494006994 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494006995 ferrochelatase; Reviewed; Region: hemH; PRK00035 395494006996 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 395494006997 C-terminal domain interface [polypeptide binding]; other site 395494006998 active site 395494006999 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 395494007000 active site 395494007001 N-terminal domain interface [polypeptide binding]; other site 395494007002 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395494007003 cyclase homology domain; Region: CHD; cd07302 395494007004 nucleotidyl binding site; other site 395494007005 metal binding site [ion binding]; metal-binding site 395494007006 dimer interface [polypeptide binding]; other site 395494007007 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 395494007008 Ligand Binding Site [chemical binding]; other site 395494007009 HAMP domain; Region: HAMP; pfam00672 395494007010 dimerization interface [polypeptide binding]; other site 395494007011 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 395494007012 PAS domain; Region: PAS_9; pfam13426 395494007013 putative active site [active] 395494007014 heme pocket [chemical binding]; other site 395494007015 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494007016 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007017 metal binding site [ion binding]; metal-binding site 395494007018 active site 395494007019 I-site; other site 395494007020 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 395494007021 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 395494007022 catalytic site [active] 395494007023 putative active site [active] 395494007024 putative substrate binding site [chemical binding]; other site 395494007025 dimer interface [polypeptide binding]; other site 395494007026 Peptidase family M48; Region: Peptidase_M48; pfam01435 395494007027 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 395494007028 GTPase RsgA; Reviewed; Region: PRK00098 395494007029 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 395494007030 RNA binding site [nucleotide binding]; other site 395494007031 homodimer interface [polypeptide binding]; other site 395494007032 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 395494007033 GTPase/Zn-binding domain interface [polypeptide binding]; other site 395494007034 GTP/Mg2+ binding site [chemical binding]; other site 395494007035 G4 box; other site 395494007036 G5 box; other site 395494007037 G1 box; other site 395494007038 Switch I region; other site 395494007039 G2 box; other site 395494007040 G3 box; other site 395494007041 Switch II region; other site 395494007042 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 395494007043 serine/threonine protein kinase; Provisional; Region: PRK11768 395494007044 Phosphotransferase enzyme family; Region: APH; pfam01636 395494007045 aspartate aminotransferase; Provisional; Region: PRK05764 395494007046 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 395494007047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494007048 homodimer interface [polypeptide binding]; other site 395494007049 catalytic residue [active] 395494007050 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395494007051 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 395494007052 S-adenosylmethionine binding site [chemical binding]; other site 395494007053 DsrE/DsrF-like family; Region: DrsE; pfam02635 395494007054 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395494007055 EamA-like transporter family; Region: EamA; pfam00892 395494007056 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395494007057 Heavy-metal-associated domain; Region: HMA; pfam00403 395494007058 metal-binding site [ion binding] 395494007059 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494007060 Soluble P-type ATPase [General function prediction only]; Region: COG4087 395494007061 Iron permease FTR1 family; Region: FTR1; cl00475 395494007062 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 395494007063 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395494007064 metal binding site 2 [ion binding]; metal-binding site 395494007065 putative DNA binding helix; other site 395494007066 metal binding site 1 [ion binding]; metal-binding site 395494007067 dimer interface [polypeptide binding]; other site 395494007068 structural Zn2+ binding site [ion binding]; other site 395494007069 Domain of unknown function DUF302; Region: DUF302; pfam03625 395494007070 Short C-terminal domain; Region: SHOCT; pfam09851 395494007071 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395494007072 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395494007073 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494007074 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395494007075 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 395494007076 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494007077 Outer membrane efflux protein; Region: OEP; pfam02321 395494007078 Outer membrane efflux protein; Region: OEP; pfam02321 395494007079 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 395494007080 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 395494007081 non-specific DNA binding site [nucleotide binding]; other site 395494007082 salt bridge; other site 395494007083 sequence-specific DNA binding site [nucleotide binding]; other site 395494007084 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 395494007085 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 395494007086 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 395494007087 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 395494007088 Uncharacterized conserved protein [Function unknown]; Region: COG2850 395494007089 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 395494007090 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 395494007091 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 395494007092 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 395494007093 dihydrodipicolinate synthase; Region: dapA; TIGR00674 395494007094 dimer interface [polypeptide binding]; other site 395494007095 active site 395494007096 catalytic residue [active] 395494007097 FeoA domain; Region: FeoA; pfam04023 395494007098 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 395494007099 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 395494007100 G1 box; other site 395494007101 GTP/Mg2+ binding site [chemical binding]; other site 395494007102 Switch I region; other site 395494007103 G2 box; other site 395494007104 G3 box; other site 395494007105 Switch II region; other site 395494007106 G4 box; other site 395494007107 G5 box; other site 395494007108 Nucleoside recognition; Region: Gate; pfam07670 395494007109 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 395494007110 Nucleoside recognition; Region: Gate; pfam07670 395494007111 Septum formation initiator; Region: DivIC; cl17659 395494007112 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 395494007113 enolase; Provisional; Region: eno; PRK00077 395494007114 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 395494007115 dimer interface [polypeptide binding]; other site 395494007116 metal binding site [ion binding]; metal-binding site 395494007117 substrate binding pocket [chemical binding]; other site 395494007118 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 395494007119 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 395494007120 CTP synthetase; Validated; Region: pyrG; PRK05380 395494007121 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 395494007122 Catalytic site [active] 395494007123 active site 395494007124 UTP binding site [chemical binding]; other site 395494007125 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 395494007126 active site 395494007127 putative oxyanion hole; other site 395494007128 catalytic triad [active] 395494007129 acetyl-CoA synthetase; Provisional; Region: PRK00174 395494007130 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 395494007131 active site 395494007132 CoA binding site [chemical binding]; other site 395494007133 acyl-activating enzyme (AAE) consensus motif; other site 395494007134 AMP binding site [chemical binding]; other site 395494007135 acetate binding site [chemical binding]; other site 395494007136 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 395494007137 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 395494007138 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395494007139 catalytic residue [active] 395494007140 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395494007141 YqjK-like protein; Region: YqjK; pfam13997 395494007142 Predicted membrane protein [Function unknown]; Region: COG5393 395494007143 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 395494007144 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395494007145 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395494007146 Walker A/P-loop; other site 395494007147 ATP binding site [chemical binding]; other site 395494007148 Q-loop/lid; other site 395494007149 ABC transporter signature motif; other site 395494007150 Walker B; other site 395494007151 D-loop; other site 395494007152 H-loop/switch region; other site 395494007153 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 395494007154 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395494007155 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395494007156 Walker A/P-loop; other site 395494007157 ATP binding site [chemical binding]; other site 395494007158 Q-loop/lid; other site 395494007159 ABC transporter signature motif; other site 395494007160 Walker B; other site 395494007161 D-loop; other site 395494007162 H-loop/switch region; other site 395494007163 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 395494007164 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395494007165 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395494007166 dimer interface [polypeptide binding]; other site 395494007167 conserved gate region; other site 395494007168 putative PBP binding loops; other site 395494007169 ABC-ATPase subunit interface; other site 395494007170 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395494007171 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395494007172 dimer interface [polypeptide binding]; other site 395494007173 conserved gate region; other site 395494007174 putative PBP binding loops; other site 395494007175 ABC-ATPase subunit interface; other site 395494007176 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_18; cd08505 395494007177 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395494007178 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395494007179 cyclase homology domain; Region: CHD; cd07302 395494007180 nucleotidyl binding site; other site 395494007181 metal binding site [ion binding]; metal-binding site 395494007182 dimer interface [polypeptide binding]; other site 395494007183 Hemerythrin; Region: Hemerythrin; cd12107 395494007184 Fe binding site [ion binding]; other site 395494007185 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 395494007186 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 395494007187 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395494007188 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 395494007189 Predicted membrane protein [Function unknown]; Region: COG3235 395494007190 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395494007191 Coenzyme A binding pocket [chemical binding]; other site 395494007192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395494007193 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395494007194 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 395494007195 nucleoside/Zn binding site; other site 395494007196 dimer interface [polypeptide binding]; other site 395494007197 catalytic motif [active] 395494007198 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007199 Response regulator receiver domain; Region: Response_reg; pfam00072 395494007200 active site 395494007201 phosphorylation site [posttranslational modification] 395494007202 intermolecular recognition site; other site 395494007203 dimerization interface [polypeptide binding]; other site 395494007204 CheC-like family; Region: CheC; pfam04509 395494007205 Chemotaxis phosphatase CheX; Region: CheX; cl15816 395494007206 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 395494007207 PAS domain; Region: PAS_9; pfam13426 395494007208 putative active site [active] 395494007209 heme pocket [chemical binding]; other site 395494007210 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494007211 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007212 metal binding site [ion binding]; metal-binding site 395494007213 active site 395494007214 I-site; other site 395494007215 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 395494007216 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 395494007217 catalytic triad [active] 395494007218 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 395494007219 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 395494007220 putative active site [active] 395494007221 PhoH-like protein; Region: PhoH; pfam02562 395494007222 methionine sulfoxide reductase B; Provisional; Region: PRK00222 395494007223 SelR domain; Region: SelR; pfam01641 395494007224 intracellular septation protein A; Reviewed; Region: PRK00259 395494007225 YciI-like protein; Reviewed; Region: PRK11370 395494007226 BolA-like protein; Region: BolA; pfam01722 395494007227 SurA N-terminal domain; Region: SurA_N_3; cl07813 395494007228 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 395494007229 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 395494007230 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 395494007231 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 395494007232 putative metal binding site [ion binding]; other site 395494007233 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 395494007234 HSP70 interaction site [polypeptide binding]; other site 395494007235 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 395494007236 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 395494007237 putative ATP binding site [chemical binding]; other site 395494007238 putative substrate interface [chemical binding]; other site 395494007239 CHASE domain; Region: CHASE; pfam03924 395494007240 PAS domain S-box; Region: sensory_box; TIGR00229 395494007241 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 395494007242 putative active site [active] 395494007243 heme pocket [chemical binding]; other site 395494007244 PAS domain S-box; Region: sensory_box; TIGR00229 395494007245 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 395494007246 putative active site [active] 395494007247 heme pocket [chemical binding]; other site 395494007248 PAS domain; Region: PAS_9; pfam13426 395494007249 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494007250 GAF domain; Region: GAF; pfam01590 395494007251 PAS domain S-box; Region: sensory_box; TIGR00229 395494007252 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 395494007253 putative active site [active] 395494007254 heme pocket [chemical binding]; other site 395494007255 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 395494007256 dimer interface [polypeptide binding]; other site 395494007257 phosphorylation site [posttranslational modification] 395494007258 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 395494007259 ATP binding site [chemical binding]; other site 395494007260 Mg2+ binding site [ion binding]; other site 395494007261 G-X-G motif; other site 395494007262 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494007263 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 395494007264 active site 395494007265 phosphorylation site [posttranslational modification] 395494007266 dimerization interface [polypeptide binding]; other site 395494007267 Response regulator receiver domain; Region: Response_reg; pfam00072 395494007268 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007269 active site 395494007270 phosphorylation site [posttranslational modification] 395494007271 intermolecular recognition site; other site 395494007272 dimerization interface [polypeptide binding]; other site 395494007273 Hpt domain; Region: Hpt; pfam01627 395494007274 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494007275 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494007276 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494007277 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 395494007278 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007279 active site 395494007280 phosphorylation site [posttranslational modification] 395494007281 intermolecular recognition site; other site 395494007282 dimerization interface [polypeptide binding]; other site 395494007283 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494007284 Zn2+ binding site [ion binding]; other site 395494007285 Mg2+ binding site [ion binding]; other site 395494007286 Response regulator receiver domain; Region: Response_reg; pfam00072 395494007287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007288 active site 395494007289 phosphorylation site [posttranslational modification] 395494007290 intermolecular recognition site; other site 395494007291 dimerization interface [polypeptide binding]; other site 395494007292 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 395494007293 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 395494007294 active site 395494007295 catalytic site [active] 395494007296 substrate binding site [chemical binding]; other site 395494007297 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 395494007298 pseudouridine synthase; Region: TIGR00093 395494007299 probable active site [active] 395494007300 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 395494007301 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 395494007302 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 395494007303 DNA-binding site [nucleotide binding]; DNA binding site 395494007304 RNA-binding motif; other site 395494007305 Uncharacterized conserved protein [Function unknown]; Region: COG2127 395494007306 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 395494007307 Clp amino terminal domain; Region: Clp_N; pfam02861 395494007308 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 395494007309 Walker A motif; other site 395494007310 ATP binding site [chemical binding]; other site 395494007311 Walker B motif; other site 395494007312 arginine finger; other site 395494007313 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 395494007314 Walker A motif; other site 395494007315 ATP binding site [chemical binding]; other site 395494007316 Walker B motif; other site 395494007317 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 395494007318 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 395494007319 active site 395494007320 HIGH motif; other site 395494007321 nucleotide binding site [chemical binding]; other site 395494007322 active site 395494007323 KMSKS motif; other site 395494007324 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 395494007325 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 395494007326 active site 395494007327 substrate binding site [chemical binding]; other site 395494007328 metal binding site [ion binding]; metal-binding site 395494007329 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 395494007330 dihydropteroate synthase; Region: DHPS; TIGR01496 395494007331 substrate binding pocket [chemical binding]; other site 395494007332 dimer interface [polypeptide binding]; other site 395494007333 inhibitor binding site; inhibition site 395494007334 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 395494007335 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 395494007336 Walker A motif; other site 395494007337 ATP binding site [chemical binding]; other site 395494007338 Walker B motif; other site 395494007339 arginine finger; other site 395494007340 Peptidase family M41; Region: Peptidase_M41; pfam01434 395494007341 FtsJ-like methyltransferase; Region: FtsJ; cl17430 395494007342 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 395494007343 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 395494007344 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 395494007345 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 395494007346 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395494007347 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 395494007348 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395494007349 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 395494007350 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 395494007351 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395494007352 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395494007353 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 395494007354 IMP binding site; other site 395494007355 dimer interface [polypeptide binding]; other site 395494007356 interdomain contacts; other site 395494007357 partial ornithine binding site; other site 395494007358 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 395494007359 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 395494007360 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 395494007361 catalytic site [active] 395494007362 subunit interface [polypeptide binding]; other site 395494007363 Predicted membrane protein [Function unknown]; Region: COG1971 395494007364 Domain of unknown function DUF; Region: DUF204; pfam02659 395494007365 Domain of unknown function DUF; Region: DUF204; pfam02659 395494007366 MASE1; Region: MASE1; pfam05231 395494007367 CHASE domain; Region: CHASE; pfam03924 395494007368 PAS domain S-box; Region: sensory_box; TIGR00229 395494007369 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 395494007370 putative active site [active] 395494007371 heme pocket [chemical binding]; other site 395494007372 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494007373 GAF domain; Region: GAF; cl17456 395494007374 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 395494007375 PAS domain; Region: PAS_9; pfam13426 395494007376 putative active site [active] 395494007377 heme pocket [chemical binding]; other site 395494007378 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 395494007379 dimer interface [polypeptide binding]; other site 395494007380 phosphorylation site [posttranslational modification] 395494007381 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 395494007382 ATP binding site [chemical binding]; other site 395494007383 Mg2+ binding site [ion binding]; other site 395494007384 G-X-G motif; other site 395494007385 Response regulator receiver domain; Region: Response_reg; pfam00072 395494007386 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007387 active site 395494007388 phosphorylation site [posttranslational modification] 395494007389 intermolecular recognition site; other site 395494007390 dimerization interface [polypeptide binding]; other site 395494007391 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494007392 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007393 active site 395494007394 phosphorylation site [posttranslational modification] 395494007395 intermolecular recognition site; other site 395494007396 dimerization interface [polypeptide binding]; other site 395494007397 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 395494007398 PAS domain; Region: PAS_9; pfam13426 395494007399 putative active site [active] 395494007400 heme pocket [chemical binding]; other site 395494007401 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494007402 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007403 metal binding site [ion binding]; metal-binding site 395494007404 active site 395494007405 I-site; other site 395494007406 psiF repeat; Region: PsiF_repeat; pfam07769 395494007407 psiF repeat; Region: PsiF_repeat; pfam07769 395494007408 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 395494007409 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 395494007410 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 395494007411 ATP binding site [chemical binding]; other site 395494007412 putative Mg++ binding site [ion binding]; other site 395494007413 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 395494007414 nucleotide binding region [chemical binding]; other site 395494007415 ATP-binding site [chemical binding]; other site 395494007416 Leucine rich repeat; Region: LRR_8; pfam13855 395494007417 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 395494007418 Leucine-rich repeats; other site 395494007419 Leucine rich repeat; Region: LRR_8; pfam13855 395494007420 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494007421 active site 395494007422 ATP binding site [chemical binding]; other site 395494007423 substrate binding site [chemical binding]; other site 395494007424 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494007425 activation loop (A-loop); other site 395494007426 activation loop (A-loop); other site 395494007427 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 395494007428 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 395494007429 catalytic triad [active] 395494007430 putative GTP cyclohydrolase; Provisional; Region: PRK13674 395494007431 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 395494007432 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 395494007433 TPP-binding site; other site 395494007434 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 395494007435 PYR/PP interface [polypeptide binding]; other site 395494007436 dimer interface [polypeptide binding]; other site 395494007437 TPP binding site [chemical binding]; other site 395494007438 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395494007439 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 395494007440 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 395494007441 substrate binding pocket [chemical binding]; other site 395494007442 chain length determination region; other site 395494007443 substrate-Mg2+ binding site; other site 395494007444 catalytic residues [active] 395494007445 aspartate-rich region 1; other site 395494007446 active site lid residues [active] 395494007447 aspartate-rich region 2; other site 395494007448 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 395494007449 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395494007450 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395494007451 [2Fe-2S] cluster binding site [ion binding]; other site 395494007452 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 395494007453 alpha subunit interface [polypeptide binding]; other site 395494007454 active site 395494007455 substrate binding site [chemical binding]; other site 395494007456 Fe binding site [ion binding]; other site 395494007457 EamA-like transporter family; Region: EamA; pfam00892 395494007458 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395494007459 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 395494007460 CcdB protein; Region: CcdB; cl03380 395494007461 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 395494007462 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 395494007463 MgtE intracellular N domain; Region: MgtE_N; smart00924 395494007464 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 395494007465 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 395494007466 Cl binding site [ion binding]; other site 395494007467 oligomer interface [polypeptide binding]; other site 395494007468 PBP superfamily domain; Region: PBP_like_2; cl17296 395494007469 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 395494007470 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395494007471 dimer interface [polypeptide binding]; other site 395494007472 conserved gate region; other site 395494007473 putative PBP binding loops; other site 395494007474 ABC-ATPase subunit interface; other site 395494007475 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 395494007476 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395494007477 dimer interface [polypeptide binding]; other site 395494007478 conserved gate region; other site 395494007479 putative PBP binding loops; other site 395494007480 ABC-ATPase subunit interface; other site 395494007481 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 395494007482 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 395494007483 Walker A/P-loop; other site 395494007484 ATP binding site [chemical binding]; other site 395494007485 Q-loop/lid; other site 395494007486 ABC transporter signature motif; other site 395494007487 Walker B; other site 395494007488 D-loop; other site 395494007489 H-loop/switch region; other site 395494007490 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 395494007491 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 395494007492 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494007493 putative active site [active] 395494007494 heme pocket [chemical binding]; other site 395494007495 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494007496 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 395494007497 putative active site [active] 395494007498 heme pocket [chemical binding]; other site 395494007499 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 395494007500 dimer interface [polypeptide binding]; other site 395494007501 phosphorylation site [posttranslational modification] 395494007502 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 395494007503 ATP binding site [chemical binding]; other site 395494007504 Mg2+ binding site [ion binding]; other site 395494007505 G-X-G motif; other site 395494007506 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007507 Response regulator receiver domain; Region: Response_reg; pfam00072 395494007508 active site 395494007509 phosphorylation site [posttranslational modification] 395494007510 intermolecular recognition site; other site 395494007511 dimerization interface [polypeptide binding]; other site 395494007512 Response regulator receiver domain; Region: Response_reg; pfam00072 395494007513 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007514 active site 395494007515 phosphorylation site [posttranslational modification] 395494007516 intermolecular recognition site; other site 395494007517 dimerization interface [polypeptide binding]; other site 395494007518 Hpt domain; Region: Hpt; pfam01627 395494007519 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 395494007520 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 395494007521 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007522 active site 395494007523 phosphorylation site [posttranslational modification] 395494007524 intermolecular recognition site; other site 395494007525 dimerization interface [polypeptide binding]; other site 395494007526 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494007527 Zn2+ binding site [ion binding]; other site 395494007528 Mg2+ binding site [ion binding]; other site 395494007529 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494007530 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007531 metal binding site [ion binding]; metal-binding site 395494007532 active site 395494007533 I-site; other site 395494007534 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 395494007535 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 395494007536 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 395494007537 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 395494007538 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395494007539 Protein export membrane protein; Region: SecD_SecF; pfam02355 395494007540 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 395494007541 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 395494007542 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395494007543 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 395494007544 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 395494007545 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 395494007546 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 395494007547 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 395494007548 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 395494007549 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 395494007550 nudix motif; other site 395494007551 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 395494007552 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 395494007553 adenylosuccinate lyase; Provisional; Region: PRK09285 395494007554 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 395494007555 tetramer interface [polypeptide binding]; other site 395494007556 active site 395494007557 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 395494007558 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 395494007559 Flavoprotein; Region: Flavoprotein; pfam02441 395494007560 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 395494007561 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 395494007562 trimer interface [polypeptide binding]; other site 395494007563 active site 395494007564 PEGA domain; Region: PEGA; pfam08308 395494007565 FOG: CBS domain [General function prediction only]; Region: COG0517 395494007566 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 395494007567 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 395494007568 putative active site [active] 395494007569 Ap4A binding site [chemical binding]; other site 395494007570 nudix motif; other site 395494007571 putative metal binding site [ion binding]; other site 395494007572 prolyl-tRNA synthetase; Provisional; Region: PRK09194 395494007573 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 395494007574 dimer interface [polypeptide binding]; other site 395494007575 motif 1; other site 395494007576 active site 395494007577 motif 2; other site 395494007578 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 395494007579 putative deacylase active site [active] 395494007580 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 395494007581 active site 395494007582 motif 3; other site 395494007583 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 395494007584 anticodon binding site; other site 395494007585 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395494007586 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 395494007587 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395494007588 catalytic residue [active] 395494007589 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 395494007590 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395494007591 catalytic residues [active] 395494007592 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 395494007593 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 395494007594 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 395494007595 Walker A motif; other site 395494007596 ATP binding site [chemical binding]; other site 395494007597 Walker B motif; other site 395494007598 arginine finger; other site 395494007599 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 395494007600 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395494007601 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395494007602 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 395494007603 TPR motif; other site 395494007604 binding surface 395494007605 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 395494007606 TPR motif; other site 395494007607 TPR repeat; Region: TPR_11; pfam13414 395494007608 binding surface 395494007609 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 395494007610 type II secretion system protein E; Region: type_II_gspE; TIGR02533 395494007611 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 395494007612 Walker A motif; other site 395494007613 ATP binding site [chemical binding]; other site 395494007614 Walker B motif; other site 395494007615 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 395494007616 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395494007617 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395494007618 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 395494007619 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 395494007620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007621 active site 395494007622 phosphorylation site [posttranslational modification] 395494007623 intermolecular recognition site; other site 395494007624 dimerization interface [polypeptide binding]; other site 395494007625 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395494007626 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494007627 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 395494007628 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 395494007629 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 395494007630 active site 395494007631 HIGH motif; other site 395494007632 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 395494007633 KMSKS motif; other site 395494007634 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 395494007635 tRNA binding surface [nucleotide binding]; other site 395494007636 anticodon binding site; other site 395494007637 Predicted membrane protein [Function unknown]; Region: COG3671 395494007638 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 395494007639 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395494007640 active site 395494007641 HIGH motif; other site 395494007642 nucleotide binding site [chemical binding]; other site 395494007643 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 395494007644 KMSKS motif; other site 395494007645 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 395494007646 TPR repeat; Region: TPR_11; pfam13414 395494007647 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 395494007648 binding surface 395494007649 TPR motif; other site 395494007650 SnoaL-like domain; Region: SnoaL_3; pfam13474 395494007651 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 395494007652 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 395494007653 substrate binding site [chemical binding]; other site 395494007654 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 395494007655 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395494007656 putative active site [active] 395494007657 putative metal binding site [ion binding]; other site 395494007658 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 395494007659 dimerization interface [polypeptide binding]; other site 395494007660 PAS domain S-box; Region: sensory_box; TIGR00229 395494007661 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 395494007662 putative active site [active] 395494007663 heme pocket [chemical binding]; other site 395494007664 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494007665 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007666 metal binding site [ion binding]; metal-binding site 395494007667 active site 395494007668 I-site; other site 395494007669 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 395494007670 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 395494007671 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 395494007672 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 395494007673 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 395494007674 PAS domain; Region: PAS_9; pfam13426 395494007675 putative active site [active] 395494007676 heme pocket [chemical binding]; other site 395494007677 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494007678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007679 metal binding site [ion binding]; metal-binding site 395494007680 active site 395494007681 I-site; other site 395494007682 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 395494007683 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 395494007684 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395494007685 putative active site [active] 395494007686 putative metal binding site [ion binding]; other site 395494007687 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395494007688 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 395494007689 putative ADP-binding pocket [chemical binding]; other site 395494007690 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 395494007691 PAS fold; Region: PAS_3; pfam08447 395494007692 putative active site [active] 395494007693 heme pocket [chemical binding]; other site 395494007694 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494007695 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007696 metal binding site [ion binding]; metal-binding site 395494007697 active site 395494007698 I-site; other site 395494007699 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 395494007700 tetramer interfaces [polypeptide binding]; other site 395494007701 binuclear metal-binding site [ion binding]; other site 395494007702 thiamine monophosphate kinase; Provisional; Region: PRK05731 395494007703 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 395494007704 ATP binding site [chemical binding]; other site 395494007705 dimerization interface [polypeptide binding]; other site 395494007706 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 395494007707 putative RNA binding site [nucleotide binding]; other site 395494007708 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 395494007709 homopentamer interface [polypeptide binding]; other site 395494007710 active site 395494007711 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 395494007712 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 395494007713 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 395494007714 dimerization interface [polypeptide binding]; other site 395494007715 active site 395494007716 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 395494007717 Lumazine binding domain; Region: Lum_binding; pfam00677 395494007718 Lumazine binding domain; Region: Lum_binding; pfam00677 395494007719 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 395494007720 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 395494007721 catalytic motif [active] 395494007722 Zn binding site [ion binding]; other site 395494007723 RibD C-terminal domain; Region: RibD_C; cl17279 395494007724 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 395494007725 ATP cone domain; Region: ATP-cone; pfam03477 395494007726 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 395494007727 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 395494007728 dimer interface [polypeptide binding]; other site 395494007729 active site 395494007730 glycine-pyridoxal phosphate binding site [chemical binding]; other site 395494007731 folate binding site [chemical binding]; other site 395494007732 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 395494007733 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 395494007734 PAS domain; Region: PAS_9; pfam13426 395494007735 putative active site [active] 395494007736 heme pocket [chemical binding]; other site 395494007737 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494007738 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007739 metal binding site [ion binding]; metal-binding site 395494007740 active site 395494007741 I-site; other site 395494007742 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 395494007743 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494007744 GAF domain; Region: GAF; pfam01590 395494007745 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 395494007746 PAS domain; Region: PAS_9; pfam13426 395494007747 putative active site [active] 395494007748 heme pocket [chemical binding]; other site 395494007749 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494007750 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007751 metal binding site [ion binding]; metal-binding site 395494007752 active site 395494007753 I-site; other site 395494007754 peptidase PmbA; Provisional; Region: PRK11040 395494007755 hypothetical protein; Provisional; Region: PRK05255 395494007756 HAMP domain; Region: HAMP; pfam00672 395494007757 dimerization interface [polypeptide binding]; other site 395494007758 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494007759 dimer interface [polypeptide binding]; other site 395494007760 putative CheW interface [polypeptide binding]; other site 395494007761 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 395494007762 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 395494007763 PAS domain; Region: PAS_9; pfam13426 395494007764 putative active site [active] 395494007765 heme pocket [chemical binding]; other site 395494007766 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 395494007767 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 395494007768 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395494007769 metal binding site 2 [ion binding]; metal-binding site 395494007770 putative DNA binding helix; other site 395494007771 metal binding site 1 [ion binding]; metal-binding site 395494007772 dimer interface [polypeptide binding]; other site 395494007773 structural Zn2+ binding site [ion binding]; other site 395494007774 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 395494007775 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 395494007776 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 395494007777 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 395494007778 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 395494007779 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 395494007780 quinone interaction residues [chemical binding]; other site 395494007781 active site 395494007782 catalytic residues [active] 395494007783 FMN binding site [chemical binding]; other site 395494007784 substrate binding site [chemical binding]; other site 395494007785 electron transport complex protein RsxA; Provisional; Region: PRK05151 395494007786 electron transport complex protein RnfB; Provisional; Region: PRK05113 395494007787 Putative Fe-S cluster; Region: FeS; pfam04060 395494007788 4Fe-4S binding domain; Region: Fer4; pfam00037 395494007789 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 395494007790 SLBB domain; Region: SLBB; pfam10531 395494007791 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 395494007792 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 395494007793 FMN-binding domain; Region: FMN_bind; cl01081 395494007794 electron transport complex RsxE subunit; Provisional; Region: PRK12405 395494007795 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 395494007796 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395494007797 minor groove reading motif; other site 395494007798 helix-hairpin-helix signature motif; other site 395494007799 substrate binding pocket [chemical binding]; other site 395494007800 active site 395494007801 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 395494007802 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 395494007803 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395494007804 substrate binding pocket [chemical binding]; other site 395494007805 membrane-bound complex binding site; other site 395494007806 hinge residues; other site 395494007807 PAS fold; Region: PAS_4; pfam08448 395494007808 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 395494007809 heme pocket [chemical binding]; other site 395494007810 putative active site [active] 395494007811 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 395494007812 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494007813 putative active site [active] 395494007814 heme pocket [chemical binding]; other site 395494007815 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 395494007816 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494007817 putative active site [active] 395494007818 heme pocket [chemical binding]; other site 395494007819 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 395494007820 putative active site [active] 395494007821 heme pocket [chemical binding]; other site 395494007822 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494007823 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007824 metal binding site [ion binding]; metal-binding site 395494007825 active site 395494007826 I-site; other site 395494007827 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 395494007828 active site residue [active] 395494007829 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 395494007830 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 395494007831 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 395494007832 dimerization interface [polypeptide binding]; other site 395494007833 putative ATP binding site [chemical binding]; other site 395494007834 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 395494007835 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 395494007836 active site 395494007837 substrate binding site [chemical binding]; other site 395494007838 cosubstrate binding site; other site 395494007839 catalytic site [active] 395494007840 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 395494007841 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 395494007842 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 395494007843 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 395494007844 S-adenosylmethionine binding site [chemical binding]; other site 395494007845 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 395494007846 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 395494007847 active site 395494007848 HIGH motif; other site 395494007849 KMSKS motif; other site 395494007850 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 395494007851 tRNA binding surface [nucleotide binding]; other site 395494007852 anticodon binding site; other site 395494007853 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 395494007854 dimer interface [polypeptide binding]; other site 395494007855 putative tRNA-binding site [nucleotide binding]; other site 395494007856 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 395494007857 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 395494007858 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 395494007859 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 395494007860 hydrogenase 4 subunit F; Validated; Region: PRK06458 395494007861 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395494007862 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 395494007863 NADH dehydrogenase; Region: NADHdh; cl00469 395494007864 hydrogenase 4 subunit B; Validated; Region: PRK06521 395494007865 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395494007866 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 395494007867 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395494007868 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494007869 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 395494007870 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 395494007871 dimerization interface [polypeptide binding]; other site 395494007872 DPS ferroxidase diiron center [ion binding]; other site 395494007873 ion pore; other site 395494007874 Rubredoxin [Energy production and conversion]; Region: COG1773 395494007875 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 395494007876 iron binding site [ion binding]; other site 395494007877 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 395494007878 Rubrerythrin [Energy production and conversion]; Region: COG1592 395494007879 binuclear metal center [ion binding]; other site 395494007880 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 395494007881 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395494007882 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 395494007883 dimerization interface [polypeptide binding]; other site 395494007884 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 395494007885 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 395494007886 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 395494007887 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 395494007888 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 395494007889 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 395494007890 arsenical-resistance protein; Region: acr3; TIGR00832 395494007891 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 395494007892 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 395494007893 P loop; other site 395494007894 Nucleotide binding site [chemical binding]; other site 395494007895 DTAP/Switch II; other site 395494007896 Switch I; other site 395494007897 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 395494007898 P loop; other site 395494007899 Nucleotide binding site [chemical binding]; other site 395494007900 DTAP/Switch II; other site 395494007901 Switch I; other site 395494007902 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 395494007903 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395494007904 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 395494007905 active site 395494007906 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 395494007907 dimerization interface [polypeptide binding]; other site 395494007908 putative DNA binding site [nucleotide binding]; other site 395494007909 putative Zn2+ binding site [ion binding]; other site 395494007910 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 395494007911 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 395494007912 active site 395494007913 DNA binding site [nucleotide binding] 395494007914 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 395494007915 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 395494007916 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 395494007917 Catalytic site [active] 395494007918 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 395494007919 AAA domain; Region: AAA_30; pfam13604 395494007920 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395494007921 Family description; Region: UvrD_C_2; pfam13538 395494007922 SlyX; Region: SlyX; cl01090 395494007923 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 395494007924 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395494007925 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 395494007926 Walker A motif; other site 395494007927 ATP binding site [chemical binding]; other site 395494007928 Walker B motif; other site 395494007929 arginine finger; other site 395494007930 Transposase; Region: HTH_Tnp_1; pfam01527 395494007931 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395494007932 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 395494007933 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 395494007934 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 395494007935 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 395494007936 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 395494007937 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 395494007938 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 395494007939 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 395494007940 active site 1 [active] 395494007941 dimer interface [polypeptide binding]; other site 395494007942 hexamer interface [polypeptide binding]; other site 395494007943 active site 2 [active] 395494007944 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 395494007945 AAA domain; Region: AAA_30; pfam13604 395494007946 Family description; Region: UvrD_C_2; pfam13538 395494007947 crystallin beta/gamma motif-containing protein; Region: PHA00657 395494007948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 395494007949 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 395494007950 active site 395494007951 catalytic residues [active] 395494007952 DNA binding site [nucleotide binding] 395494007953 Int/Topo IB signature motif; other site 395494007954 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 395494007955 active site 395494007956 catalytic residues [active] 395494007957 Int/Topo IB signature motif; other site 395494007958 DNA binding site [nucleotide binding] 395494007959 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 395494007960 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 395494007961 dimer interface [polypeptide binding]; other site 395494007962 ssDNA binding site [nucleotide binding]; other site 395494007963 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395494007964 Uncharacterized conserved protein [Function unknown]; Region: COG0397 395494007965 hypothetical protein; Validated; Region: PRK00029 395494007966 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 395494007967 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 395494007968 endo-1,4-D-glucanase; Provisional; Region: PRK11097 395494007969 cellulose synthase regulator protein; Provisional; Region: PRK11114 395494007970 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494007971 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494007972 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 395494007973 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 395494007974 P-loop; other site 395494007975 Magnesium ion binding site [ion binding]; other site 395494007976 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 395494007977 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 395494007978 GrpE; Region: GrpE; pfam01025 395494007979 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 395494007980 dimer interface [polypeptide binding]; other site 395494007981 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 395494007982 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 395494007983 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 395494007984 nucleotide binding site [chemical binding]; other site 395494007985 chaperone protein DnaJ; Provisional; Region: PRK10767 395494007986 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 395494007987 HSP70 interaction site [polypeptide binding]; other site 395494007988 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 395494007989 substrate binding site [polypeptide binding]; other site 395494007990 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 395494007991 Zn binding sites [ion binding]; other site 395494007992 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 395494007993 dimer interface [polypeptide binding]; other site 395494007994 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 395494007995 potassium uptake protein; Region: kup; TIGR00794 395494007996 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 395494007997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007998 active site 395494007999 phosphorylation site [posttranslational modification] 395494008000 intermolecular recognition site; other site 395494008001 dimerization interface [polypeptide binding]; other site 395494008002 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 395494008003 DNA binding site [nucleotide binding] 395494008004 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 395494008005 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395494008006 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 395494008007 dimer interface [polypeptide binding]; other site 395494008008 phosphorylation site [posttranslational modification] 395494008009 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 395494008010 ATP binding site [chemical binding]; other site 395494008011 Mg2+ binding site [ion binding]; other site 395494008012 G-X-G motif; other site 395494008013 superoxide dismutase; Provisional; Region: PRK10543 395494008014 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 395494008015 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 395494008016 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 395494008017 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 395494008018 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 395494008019 Ferredoxin [Energy production and conversion]; Region: COG1146 395494008020 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 395494008021 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 395494008022 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 395494008023 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395494008024 catalytic residues [active] 395494008025 transcription termination factor Rho; Provisional; Region: rho; PRK09376 395494008026 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 395494008027 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 395494008028 RNA binding site [nucleotide binding]; other site 395494008029 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 395494008030 multimer interface [polypeptide binding]; other site 395494008031 Walker A motif; other site 395494008032 ATP binding site [chemical binding]; other site 395494008033 Walker B motif; other site 395494008034 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 395494008035 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 395494008036 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 395494008037 GTPase CgtA; Reviewed; Region: obgE; PRK12299 395494008038 GTP1/OBG; Region: GTP1_OBG; pfam01018 395494008039 Obg GTPase; Region: Obg; cd01898 395494008040 G1 box; other site 395494008041 GTP/Mg2+ binding site [chemical binding]; other site 395494008042 Switch I region; other site 395494008043 G2 box; other site 395494008044 G3 box; other site 395494008045 Switch II region; other site 395494008046 G4 box; other site 395494008047 G5 box; other site 395494008048 gamma-glutamyl kinase; Provisional; Region: PRK05429 395494008049 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 395494008050 nucleotide binding site [chemical binding]; other site 395494008051 homotetrameric interface [polypeptide binding]; other site 395494008052 putative phosphate binding site [ion binding]; other site 395494008053 putative allosteric binding site; other site 395494008054 PUA domain; Region: PUA; pfam01472 395494008055 FOG: CBS domain [General function prediction only]; Region: COG0517 395494008056 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 395494008057 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 395494008058 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 395494008059 FOG: CBS domain [General function prediction only]; Region: COG0517 395494008060 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494008061 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494008062 metal binding site [ion binding]; metal-binding site 395494008063 active site 395494008064 I-site; other site 395494008065 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 395494008066 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 395494008067 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395494008068 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 395494008069 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 395494008070 Walker A/P-loop; other site 395494008071 ATP binding site [chemical binding]; other site 395494008072 Q-loop/lid; other site 395494008073 ABC transporter signature motif; other site 395494008074 Walker B; other site 395494008075 D-loop; other site 395494008076 H-loop/switch region; other site 395494008077 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 395494008078 putative active site [active] 395494008079 catalytic site [active] 395494008080 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 395494008081 putative active site [active] 395494008082 catalytic site [active] 395494008083 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395494008084 putative catalytic site [active] 395494008085 putative metal binding site [ion binding]; other site 395494008086 putative phosphate binding site [ion binding]; other site 395494008087 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 395494008088 quinolinate synthetase; Provisional; Region: PRK09375 395494008089 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 395494008090 nudix motif; other site 395494008091 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cl01048 395494008092 RNAase interaction site [polypeptide binding]; other site 395494008093 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 395494008094 active site 395494008095 barstar interaction site; other site 395494008096 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 395494008097 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 395494008098 dimer interface [polypeptide binding]; other site 395494008099 anticodon binding site; other site 395494008100 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 395494008101 homodimer interface [polypeptide binding]; other site 395494008102 motif 1; other site 395494008103 active site 395494008104 motif 2; other site 395494008105 GAD domain; Region: GAD; pfam02938 395494008106 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 395494008107 motif 3; other site 395494008108 Uncharacterized conserved protein [Function unknown]; Region: COG2928 395494008109 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 395494008110 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 395494008111 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 395494008112 ATP binding site [chemical binding]; other site 395494008113 Mg++ binding site [ion binding]; other site 395494008114 motif III; other site 395494008115 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 395494008116 nucleotide binding region [chemical binding]; other site 395494008117 ATP-binding site [chemical binding]; other site 395494008118 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 395494008119 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 395494008120 Cytochrome c; Region: Cytochrom_C; pfam00034 395494008121 Transcriptional regulator; Region: Rrf2; cl17282 395494008122 Predicted transcriptional regulator [Transcription]; Region: COG1959 395494008123 HPP family; Region: HPP; pfam04982 395494008124 Cadherin repeat-like domain; Region: CA_like; cl15786 395494008125 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 395494008126 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 395494008127 Cu(I) binding site [ion binding]; other site 395494008128 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 395494008129 Putative water exit pathway; other site 395494008130 Binuclear center (active site) [active] 395494008131 K-pathway; other site 395494008132 Putative proton exit pathway; other site 395494008133 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 395494008134 Transcriptional regulator; Region: Rrf2; cl17282 395494008135 Rrf2 family protein; Region: rrf2_super; TIGR00738 395494008136 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 395494008137 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395494008138 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395494008139 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395494008140 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395494008141 Walker A/P-loop; other site 395494008142 ATP binding site [chemical binding]; other site 395494008143 Q-loop/lid; other site 395494008144 ABC transporter signature motif; other site 395494008145 Walker B; other site 395494008146 D-loop; other site 395494008147 H-loop/switch region; other site 395494008148 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395494008149 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 395494008150 FtsX-like permease family; Region: FtsX; pfam02687 395494008151 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494008152 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395494008153 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494008154 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 395494008155 active site 395494008156 catalytic residues [active] 395494008157 DNA binding site [nucleotide binding] 395494008158 Int/Topo IB signature motif; other site 395494008159 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 395494008160 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 395494008161 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 395494008162 apolar tunnel; other site 395494008163 heme binding site [chemical binding]; other site 395494008164 dimerization interface [polypeptide binding]; other site 395494008165 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 395494008166 substrate binding site [chemical binding]; other site 395494008167 dimerization interface [polypeptide binding]; other site 395494008168 active site 395494008169 calcium binding site [ion binding]; other site 395494008170 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 395494008171 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 395494008172 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 395494008173 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 395494008174 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395494008175 FAD binding domain; Region: FAD_binding_4; pfam01565 395494008176 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395494008177 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 395494008178 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 395494008179 Cysteine-rich domain; Region: CCG; pfam02754 395494008180 Cysteine-rich domain; Region: CCG; pfam02754 395494008181 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 395494008182 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 395494008183 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494008184 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 395494008185 dimer interface [polypeptide binding]; other site 395494008186 phosphorylation site [posttranslational modification] 395494008187 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 395494008188 ATP binding site [chemical binding]; other site 395494008189 Mg2+ binding site [ion binding]; other site 395494008190 G-X-G motif; other site 395494008191 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 395494008192 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494008193 active site 395494008194 phosphorylation site [posttranslational modification] 395494008195 intermolecular recognition site; other site 395494008196 dimerization interface [polypeptide binding]; other site 395494008197 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 395494008198 DNA binding site [nucleotide binding] 395494008199 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 395494008200 Na binding site [ion binding]; other site 395494008201 putative glycosylation site [posttranslational modification]; other site 395494008202 putative glycosylation site [posttranslational modification]; other site 395494008203 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 395494008204 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 395494008205 transcriptional regulator PhoU; Provisional; Region: PRK11115 395494008206 PhoU domain; Region: PhoU; pfam01895 395494008207 PhoU domain; Region: PhoU; pfam01895 395494008208 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 395494008209 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395494008210 active site 395494008211 dimer interface [polypeptide binding]; other site 395494008212 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 395494008213 phosphoglucomutase; Region: PLN02307 395494008214 substrate binding site [chemical binding]; other site 395494008215 dimer interface [polypeptide binding]; other site 395494008216 active site 395494008217 metal binding site [ion binding]; metal-binding site 395494008218 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 395494008219 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 395494008220 HemY protein N-terminus; Region: HemY_N; pfam07219 395494008221 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 395494008222 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 395494008223 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 395494008224 active site 395494008225 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 395494008226 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 395494008227 domain interfaces; other site 395494008228 active site 395494008229 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 395494008230 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 395494008231 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 395494008232 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 395494008233 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 395494008234 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 395494008235 2-isopropylmalate synthase; Validated; Region: PRK00915 395494008236 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 395494008237 active site 395494008238 catalytic residues [active] 395494008239 metal binding site [ion binding]; metal-binding site 395494008240 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 395494008241 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 395494008242 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 395494008243 ketol-acid reductoisomerase; Provisional; Region: PRK05479 395494008244 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 395494008245 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 395494008246 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 395494008247 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 395494008248 putative valine binding site [chemical binding]; other site 395494008249 dimer interface [polypeptide binding]; other site 395494008250 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 395494008251 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 395494008252 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395494008253 PYR/PP interface [polypeptide binding]; other site 395494008254 dimer interface [polypeptide binding]; other site 395494008255 TPP binding site [chemical binding]; other site 395494008256 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395494008257 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 395494008258 TPP-binding site [chemical binding]; other site 395494008259 dimer interface [polypeptide binding]; other site 395494008260 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395494008261 RNA polymerase factor sigma-70; Validated; Region: PRK09047 395494008262 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 395494008263 DNA binding residues [nucleotide binding] 395494008264 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 395494008265 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 395494008266 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 395494008267 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 395494008268 Predicted permeases [General function prediction only]; Region: COG0795 395494008269 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 395494008270 multifunctional aminopeptidase A; Provisional; Region: PRK00913 395494008271 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 395494008272 interface (dimer of trimers) [polypeptide binding]; other site 395494008273 Substrate-binding/catalytic site; other site 395494008274 Zn-binding sites [ion binding]; other site 395494008275 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 395494008276 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 395494008277 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 395494008278 HIGH motif; other site 395494008279 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 395494008280 active site 395494008281 KMSKS motif; other site 395494008282 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 395494008283 tRNA binding surface [nucleotide binding]; other site 395494008284 anticodon binding site; other site 395494008285 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 395494008286 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 395494008287 PAS fold; Region: PAS_3; pfam08447 395494008288 putative active site [active] 395494008289 heme pocket [chemical binding]; other site 395494008290 PAS domain S-box; Region: sensory_box; TIGR00229 395494008291 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 395494008292 putative active site [active] 395494008293 heme pocket [chemical binding]; other site 395494008294 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 395494008295 PAS domain; Region: PAS_9; pfam13426 395494008296 putative active site [active] 395494008297 heme pocket [chemical binding]; other site 395494008298 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494008299 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494008300 metal binding site [ion binding]; metal-binding site 395494008301 active site 395494008302 I-site; other site 395494008303 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 395494008304 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 395494008305 CPxP motif; other site 395494008306 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 395494008307 active site residue [active] 395494008308 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 395494008309 Peptidase family M48; Region: Peptidase_M48; cl12018 395494008310 Flagellin N-methylase; Region: FliB; cl00497 395494008311 hypothetical protein; Provisional; Region: PRK02250 395494008312 SEC-C motif; Region: SEC-C; pfam02810 395494008313 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 395494008314 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494008315 active site 395494008316 phosphorylation site [posttranslational modification] 395494008317 intermolecular recognition site; other site 395494008318 dimerization interface [polypeptide binding]; other site 395494008319 LytTr DNA-binding domain; Region: LytTR; smart00850 395494008320 Histidine kinase; Region: His_kinase; pfam06580 395494008321 argininosuccinate lyase; Provisional; Region: PRK00855 395494008322 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 395494008323 active sites [active] 395494008324 tetramer interface [polypeptide binding]; other site 395494008325 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 395494008326 putative GSH binding site [chemical binding]; other site 395494008327 catalytic residues [active] 395494008328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 395494008329 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 395494008330 S-adenosylmethionine binding site [chemical binding]; other site 395494008331 peptide chain release factor 1; Validated; Region: prfA; PRK00591 395494008332 This domain is found in peptide chain release factors; Region: PCRF; smart00937 395494008333 RF-1 domain; Region: RF-1; pfam00472 395494008334 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 395494008335 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 395494008336 tRNA; other site 395494008337 putative tRNA binding site [nucleotide binding]; other site 395494008338 putative NADP binding site [chemical binding]; other site 395494008339 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 395494008340 YaeQ protein; Region: YaeQ; pfam07152 395494008341 hypothetical protein; Provisional; Region: PRK01842 395494008342 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 395494008343 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 395494008344 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 395494008345 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 395494008346 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395494008347 DNA-binding site [nucleotide binding]; DNA binding site 395494008348 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 395494008349 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494008350 homodimer interface [polypeptide binding]; other site 395494008351 catalytic residue [active] 395494008352 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395494008353 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 395494008354 RNA binding surface [nucleotide binding]; other site 395494008355 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 395494008356 active site 395494008357 uracil binding [chemical binding]; other site 395494008358 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 395494008359 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 395494008360 GTP/Mg2+ binding site [chemical binding]; other site 395494008361 G4 box; other site 395494008362 G5 box; other site 395494008363 G1 box; other site 395494008364 Switch I region; other site 395494008365 G2 box; other site 395494008366 G3 box; other site 395494008367 Switch II region; other site 395494008368 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 395494008369 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 395494008370 ATP binding site [chemical binding]; other site 395494008371 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 395494008372 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 395494008373 S-adenosylmethionine binding site [chemical binding]; other site 395494008374 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 395494008375 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 395494008376 active site 395494008377 dimer interface [polypeptide binding]; other site 395494008378 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 395494008379 Ligand Binding Site [chemical binding]; other site 395494008380 Molecular Tunnel; other site 395494008381 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395494008382 TPR repeat; Region: TPR_11; pfam13414 395494008383 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 395494008384 binding surface 395494008385 TPR motif; other site 395494008386 TPR repeat; Region: TPR_11; pfam13414 395494008387 putative major pilin subunit; Provisional; Region: PRK10574 395494008388 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494008389 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 395494008390 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494008391 Zn2+ binding site [ion binding]; other site 395494008392 Mg2+ binding site [ion binding]; other site 395494008393 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494008394 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494008395 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 395494008396 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 395494008397 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 395494008398 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 395494008399 Walker A motif; other site 395494008400 ATP binding site [chemical binding]; other site 395494008401 Walker B motif; other site 395494008402 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395494008403 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 395494008404 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 395494008405 phosphopeptide binding site; other site 395494008406 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 395494008407 active site 395494008408 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 395494008409 Ligand Binding Site [chemical binding]; other site 395494008410 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 395494008411 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 395494008412 CoA binding domain; Region: CoA_binding; smart00881 395494008413 CoA-ligase; Region: Ligase_CoA; pfam00549 395494008414 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 395494008415 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 395494008416 CoA-ligase; Region: Ligase_CoA; pfam00549 395494008417 phosphoenolpyruvate synthase; Validated; Region: PRK06464 395494008418 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 395494008419 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 395494008420 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 395494008421 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395494008422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395494008423 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 395494008424 dimerization interface [polypeptide binding]; other site 395494008425 PEP synthetase regulatory protein; Provisional; Region: PRK05339 395494008426 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 395494008427 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 395494008428 ATP binding site [chemical binding]; other site 395494008429 Mg++ binding site [ion binding]; other site 395494008430 motif III; other site 395494008431 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 395494008432 nucleotide binding region [chemical binding]; other site 395494008433 ATP-binding site [chemical binding]; other site 395494008434 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 395494008435 putative RNA binding site [nucleotide binding]; other site 395494008436 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 395494008437 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 395494008438 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494008439 putative active site [active] 395494008440 heme pocket [chemical binding]; other site 395494008441 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 395494008442 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494008443 putative active site [active] 395494008444 heme pocket [chemical binding]; other site 395494008445 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 395494008446 putative active site [active] 395494008447 heme pocket [chemical binding]; other site 395494008448 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 395494008449 PAS fold; Region: PAS_3; pfam08447 395494008450 putative active site [active] 395494008451 heme pocket [chemical binding]; other site 395494008452 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 395494008453 dimer interface [polypeptide binding]; other site 395494008454 phosphorylation site [posttranslational modification] 395494008455 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 395494008456 ATP binding site [chemical binding]; other site 395494008457 Mg2+ binding site [ion binding]; other site 395494008458 G-X-G motif; other site 395494008459 Response regulator receiver domain; Region: Response_reg; pfam00072 395494008460 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494008461 active site 395494008462 phosphorylation site [posttranslational modification] 395494008463 intermolecular recognition site; other site 395494008464 dimerization interface [polypeptide binding]; other site 395494008465 Response regulator receiver domain; Region: Response_reg; pfam00072 395494008466 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494008467 active site 395494008468 phosphorylation site [posttranslational modification] 395494008469 intermolecular recognition site; other site 395494008470 dimerization interface [polypeptide binding]; other site 395494008471 Hpt domain; Region: Hpt; pfam01627 395494008472 FIST N domain; Region: FIST; pfam08495 395494008473 FIST C domain; Region: FIST_C; pfam10442 395494008474 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 395494008475 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 395494008476 Ligand Binding Site [chemical binding]; other site 395494008477 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 395494008478 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 395494008479 FeS/SAM binding site; other site 395494008480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 395494008481 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 395494008482 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395494008483 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395494008484 ligand binding site [chemical binding]; other site 395494008485 translocation protein TolB; Provisional; Region: tolB; PRK02889 395494008486 TolB amino-terminal domain; Region: TolB_N; pfam04052 395494008487 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395494008488 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395494008489 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395494008490 TolA protein; Region: tolA_full; TIGR02794 395494008491 TonB C terminal; Region: TonB_2; pfam13103 395494008492 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 395494008493 TolR protein; Region: tolR; TIGR02801 395494008494 TolQ protein; Region: tolQ; TIGR02796 395494008495 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 395494008496 active site 395494008497 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 395494008498 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 395494008499 Walker A motif; other site 395494008500 ATP binding site [chemical binding]; other site 395494008501 Walker B motif; other site 395494008502 arginine finger; other site 395494008503 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 395494008504 hypothetical protein; Provisional; Region: PRK10396 395494008505 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 395494008506 SEC-C motif; Region: SEC-C; pfam02810 395494008507 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 395494008508 RuvA N terminal domain; Region: RuvA_N; pfam01330 395494008509 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 395494008510 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 395494008511 UbiA prenyltransferase family; Region: UbiA; pfam01040 395494008512 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 395494008513 active site 395494008514 putative DNA-binding cleft [nucleotide binding]; other site 395494008515 dimer interface [polypeptide binding]; other site 395494008516 hypothetical protein; Validated; Region: PRK00110 395494008517 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395494008518 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 395494008519 P-loop; other site 395494008520 Magnesium ion binding site [ion binding]; other site 395494008521 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 395494008522 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 395494008523 Malic enzyme, N-terminal domain; Region: malic; pfam00390 395494008524 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 395494008525 putative NAD(P) binding site [chemical binding]; other site 395494008526 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 395494008527 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 395494008528 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 395494008529 ATP binding site [chemical binding]; other site 395494008530 putative Mg++ binding site [ion binding]; other site 395494008531 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 395494008532 nucleotide binding region [chemical binding]; other site 395494008533 ATP-binding site [chemical binding]; other site 395494008534 Helicase associated domain (HA2); Region: HA2; pfam04408 395494008535 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 395494008536 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 395494008537 EamA-like transporter family; Region: EamA; pfam00892 395494008538 Protein of unknown function (DUF342); Region: DUF342; pfam03961 395494008539 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 395494008540 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395494008541 ligand binding site [chemical binding]; other site 395494008542 flexible hinge region; other site 395494008543 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 395494008544 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395494008545 putative substrate translocation pore; other site 395494008546 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 395494008547 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 395494008548 metal binding site [ion binding]; metal-binding site 395494008549 dimer interface [polypeptide binding]; other site 395494008550 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395494008551 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 395494008552 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_IV; cd01994 395494008553 Ligand Binding Site [chemical binding]; other site 395494008554 KTSC domain; Region: KTSC; pfam13619 395494008555 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 395494008556 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 395494008557 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 395494008558 BRO family, N-terminal domain; Region: Bro-N; pfam02498 395494008559 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 395494008560 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395494008561 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395494008562 ABC transporter; Region: ABC_tran_2; pfam12848 395494008563 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395494008564 Ferritin-like domain; Region: Ferritin; pfam00210 395494008565 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 395494008566 dinuclear metal binding motif [ion binding]; other site 395494008567 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 395494008568 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 395494008569 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494008570 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 395494008571 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 395494008572 motif II; other site 395494008573 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 395494008574 Response regulator receiver domain; Region: Response_reg; pfam00072 395494008575 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494008576 active site 395494008577 phosphorylation site [posttranslational modification] 395494008578 intermolecular recognition site; other site 395494008579 dimerization interface [polypeptide binding]; other site 395494008580 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 395494008581 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 395494008582 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 395494008583 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 395494008584 N-terminal plug; other site 395494008585 ligand-binding site [chemical binding]; other site 395494008586 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 395494008587 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 395494008588 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 395494008589 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 395494008590 Family description; Region: DsbD_2; pfam13386 395494008591 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 395494008592 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 395494008593 4Fe-4S binding domain; Region: Fer4_5; pfam12801 395494008594 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 395494008595 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 395494008596 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 395494008597 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 395494008598 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 395494008599 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 395494008600 N-terminal plug; other site 395494008601 ligand-binding site [chemical binding]; other site 395494008602 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 395494008603 Cytochrome C' Region: Cytochrom_C_2; pfam01322 395494008604 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494008605 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494008606 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494008607 Protein of unknown function, DUF485; Region: DUF485; pfam04341 395494008608 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 395494008609 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 395494008610 active site 395494008611 catalytic site [active] 395494008612 substrate binding site [chemical binding]; other site 395494008613 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 395494008614 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 395494008615 ligand binding site [chemical binding]; other site 395494008616 flexible hinge region; other site 395494008617 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 395494008618 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395494008619 metal binding triad; other site 395494008620 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 395494008621 active site 395494008622 catalytic triad [active] 395494008623 oxyanion hole [active] 395494008624 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 395494008625 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 395494008626 G1 box; other site 395494008627 putative GEF interaction site [polypeptide binding]; other site 395494008628 GTP/Mg2+ binding site [chemical binding]; other site 395494008629 Switch I region; other site 395494008630 G2 box; other site 395494008631 G3 box; other site 395494008632 Switch II region; other site 395494008633 G4 box; other site 395494008634 G5 box; other site 395494008635 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 395494008636 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 395494008637 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 395494008638 ring oligomerisation interface [polypeptide binding]; other site 395494008639 ATP/Mg binding site [chemical binding]; other site 395494008640 stacking interactions; other site 395494008641 hinge regions; other site 395494008642 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 395494008643 oligomerisation interface [polypeptide binding]; other site 395494008644 mobile loop; other site 395494008645 roof hairpin; other site 395494008646 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 395494008647 FMN binding site [chemical binding]; other site 395494008648 substrate binding site [chemical binding]; other site 395494008649 putative catalytic residue [active] 395494008650 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 395494008651 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 395494008652 inhibitor-cofactor binding pocket; inhibition site 395494008653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494008654 catalytic residue [active] 395494008655 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 395494008656 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 395494008657 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 395494008658 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 395494008659 putative acyl-acceptor binding pocket; other site 395494008660 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 395494008661 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 395494008662 putative acyl-acceptor binding pocket; other site 395494008663 S-adenosylmethionine synthetase; Validated; Region: PRK05250 395494008664 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 395494008665 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 395494008666 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 395494008667 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 395494008668 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 395494008669 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494008670 Zn2+ binding site [ion binding]; other site 395494008671 Mg2+ binding site [ion binding]; other site 395494008672 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 395494008673 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 395494008674 homotetramer interface [polypeptide binding]; other site 395494008675 ligand binding site [chemical binding]; other site 395494008676 catalytic site [active] 395494008677 NAD binding site [chemical binding]; other site 395494008678 Membrane protein of unknown function; Region: DUF360; cl00850 395494008679 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 395494008680 FAD binding site [chemical binding]; other site 395494008681 putative protease; Provisional; Region: PRK15452 395494008682 Peptidase family U32; Region: Peptidase_U32; pfam01136 395494008683 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 395494008684 Domain of unknown function (DUF386); Region: DUF386; cl01047 395494008685 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 395494008686 homotrimer interaction site [polypeptide binding]; other site 395494008687 putative active site [active] 395494008688 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 395494008689 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 395494008690 generic binding surface II; other site 395494008691 ssDNA binding site; other site 395494008692 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 395494008693 ATP binding site [chemical binding]; other site 395494008694 putative Mg++ binding site [ion binding]; other site 395494008695 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 395494008696 nucleotide binding region [chemical binding]; other site 395494008697 ATP-binding site [chemical binding]; other site 395494008698 Chorismate lyase; Region: Chor_lyase; cl01230 395494008699 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 395494008700 UbiA prenyltransferase family; Region: UbiA; pfam01040 395494008701 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 395494008702 S-adenosylmethionine binding site [chemical binding]; other site 395494008703 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 395494008704 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 395494008705 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 395494008706 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 395494008707 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 395494008708 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 395494008709 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 395494008710 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 395494008711 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 395494008712 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 395494008713 purine monophosphate binding site [chemical binding]; other site 395494008714 dimer interface [polypeptide binding]; other site 395494008715 putative catalytic residues [active] 395494008716 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 395494008717 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 395494008718 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 395494008719 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 395494008720 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 395494008721 FMN binding site [chemical binding]; other site 395494008722 active site 395494008723 catalytic residues [active] 395494008724 substrate binding site [chemical binding]; other site 395494008725 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 395494008726 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 395494008727 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 395494008728 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 395494008729 dimerization domain [polypeptide binding]; other site 395494008730 dimer interface [polypeptide binding]; other site 395494008731 catalytic residues [active] 395494008732 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 395494008733 PAS domain; Region: PAS_9; pfam13426 395494008734 putative active site [active] 395494008735 heme pocket [chemical binding]; other site 395494008736 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494008737 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494008738 metal binding site [ion binding]; metal-binding site 395494008739 active site 395494008740 I-site; other site 395494008741 MltA specific insert domain; Region: MltA; smart00925 395494008742 3D domain; Region: 3D; pfam06725 395494008743 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 395494008744 threonine dehydratase; Reviewed; Region: PRK09224 395494008745 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 395494008746 tetramer interface [polypeptide binding]; other site 395494008747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494008748 catalytic residue [active] 395494008749 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 395494008750 putative Ile/Val binding site [chemical binding]; other site 395494008751 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 395494008752 putative Ile/Val binding site [chemical binding]; other site 395494008753 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 395494008754 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 395494008755 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 395494008756 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 395494008757 dimer interface [polypeptide binding]; other site 395494008758 TPP-binding site [chemical binding]; other site 395494008759 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 395494008760 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 395494008761 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 395494008762 E3 interaction surface; other site 395494008763 lipoyl attachment site [posttranslational modification]; other site 395494008764 e3 binding domain; Region: E3_binding; pfam02817 395494008765 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 395494008766 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 395494008767 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 395494008768 active site 395494008769 (T/H)XGH motif; other site 395494008770 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 395494008771 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 395494008772 Maf-like protein; Region: Maf; pfam02545 395494008773 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 395494008774 active site 395494008775 dimer interface [polypeptide binding]; other site 395494008776 ribonuclease G; Provisional; Region: PRK11712 395494008777 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 395494008778 homodimer interface [polypeptide binding]; other site 395494008779 oligonucleotide binding site [chemical binding]; other site 395494008780 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 395494008781 YGGT family; Region: YGGT; pfam02325 395494008782 YGGT family; Region: YGGT; pfam02325 395494008783 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 395494008784 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 395494008785 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 395494008786 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395494008787 catalytic residue [active] 395494008788 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 395494008789 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 395494008790 Walker A motif; other site 395494008791 ATP binding site [chemical binding]; other site 395494008792 Walker B motif; other site 395494008793 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 395494008794 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 395494008795 Walker A motif; other site 395494008796 ATP binding site [chemical binding]; other site 395494008797 Walker B motif; other site 395494008798 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 395494008799 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 395494008800 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 395494008801 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 395494008802 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 395494008803 Protein of unknown function, DUF484; Region: DUF484; cl17449 395494008804 GAF domain; Region: GAF_2; pfam13185 395494008805 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 395494008806 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 395494008807 active site 395494008808 DNA binding site [nucleotide binding] 395494008809 Int/Topo IB signature motif; other site 395494008810 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 395494008811 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 395494008812 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 395494008813 putative RNA binding site [nucleotide binding]; other site 395494008814 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 395494008815 S-adenosylmethionine binding site [chemical binding]; other site 395494008816 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 395494008817 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 395494008818 catalytic loop [active] 395494008819 iron binding site [ion binding]; other site 395494008820 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 395494008821 FAD binding pocket [chemical binding]; other site 395494008822 FAD binding motif [chemical binding]; other site 395494008823 phosphate binding motif [ion binding]; other site 395494008824 beta-alpha-beta structure motif; other site 395494008825 NAD binding pocket [chemical binding]; other site 395494008826 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395494008827 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 395494008828 putative NAD(P) binding site [chemical binding]; other site 395494008829 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 395494008830 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 395494008831 active site 395494008832 metal binding site [ion binding]; metal-binding site 395494008833 heat shock protein 90; Provisional; Region: PRK05218 395494008834 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 395494008835 ATP binding site [chemical binding]; other site 395494008836 Mg2+ binding site [ion binding]; other site 395494008837 G-X-G motif; other site 395494008838 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395494008839 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395494008840 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 395494008841 putative N-terminal domain interface [polypeptide binding]; other site 395494008842 putative dimer interface [polypeptide binding]; other site 395494008843 putative substrate binding pocket (H-site) [chemical binding]; other site 395494008844 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 395494008845 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 395494008846 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 395494008847 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 395494008848 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 395494008849 glutamine binding [chemical binding]; other site 395494008850 catalytic triad [active] 395494008851 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 395494008852 anthranilate synthase component I; Provisional; Region: PRK13565 395494008853 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 395494008854 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 395494008855 phosphoglycolate phosphatase; Provisional; Region: PRK13222 395494008856 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 395494008857 motif II; other site 395494008858 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 395494008859 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 395494008860 substrate binding site [chemical binding]; other site 395494008861 hexamer interface [polypeptide binding]; other site 395494008862 metal binding site [ion binding]; metal-binding site 395494008863 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395494008864 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 395494008865 motif II; other site 395494008866 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 395494008867 signal recognition particle protein; Provisional; Region: PRK10867 395494008868 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 395494008869 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 395494008870 P loop; other site 395494008871 GTP binding site [chemical binding]; other site 395494008872 Signal peptide binding domain; Region: SRP_SPB; pfam02978 395494008873 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 395494008874 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 395494008875 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 395494008876 RimM N-terminal domain; Region: RimM; pfam01782 395494008877 PRC-barrel domain; Region: PRC; pfam05239 395494008878 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 395494008879 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 395494008880 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395494008881 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 395494008882 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 395494008883 Walker A motif; other site 395494008884 ATP binding site [chemical binding]; other site 395494008885 Walker B motif; other site 395494008886 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395494008887 Integrase core domain; Region: rve; pfam00665 395494008888 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395494008889 Outer membrane efflux protein; Region: OEP; pfam02321 395494008890 Outer membrane efflux protein; Region: OEP; pfam02321 395494008891 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 395494008892 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494008893 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 395494008894 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494008895 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 395494008896 Protein of unknown function, DUF; Region: DUF411; cl01142 395494008897 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 395494008898 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 395494008899 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494008900 Zn2+ binding site [ion binding]; other site 395494008901 Mg2+ binding site [ion binding]; other site 395494008902 conserved hypothetical protein; Region: TIGR02270 395494008903 YHS domain; Region: YHS; pfam04945 395494008904 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 395494008905 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494008906 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 395494008907 motif II; other site 395494008908 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 395494008909 YHS domain; Region: YHS; pfam04945 395494008910 Response regulator receiver domain; Region: Response_reg; pfam00072 395494008911 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494008912 active site 395494008913 phosphorylation site [posttranslational modification] 395494008914 intermolecular recognition site; other site 395494008915 dimerization interface [polypeptide binding]; other site 395494008916 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 395494008917 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494008918 putative active site [active] 395494008919 heme pocket [chemical binding]; other site 395494008920 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 395494008921 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494008922 putative active site [active] 395494008923 heme pocket [chemical binding]; other site 395494008924 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 395494008925 Histidine kinase; Region: HisKA_3; pfam07730 395494008926 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 395494008927 ATP binding site [chemical binding]; other site 395494008928 Mg2+ binding site [ion binding]; other site 395494008929 G-X-G motif; other site 395494008930 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 395494008931 PAS domain; Region: PAS_9; pfam13426 395494008932 putative active site [active] 395494008933 heme pocket [chemical binding]; other site 395494008934 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 395494008935 dimerization interface [polypeptide binding]; other site 395494008936 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494008937 dimer interface [polypeptide binding]; other site 395494008938 putative CheW interface [polypeptide binding]; other site 395494008939 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 395494008940 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 395494008941 DNA binding site [nucleotide binding] 395494008942 active site 395494008943 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 395494008944 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 395494008945 active site 395494008946 Int/Topo IB signature motif; other site 395494008947 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 395494008948 dimer interface [polypeptide binding]; other site 395494008949 [2Fe-2S] cluster binding site [ion binding]; other site 395494008950 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 395494008951 Serine hydrolase; Region: Ser_hydrolase; cl17834 395494008952 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395494008953 nodulation ABC transporter NodI; Provisional; Region: PRK13537 395494008954 Walker A/P-loop; other site 395494008955 ATP binding site [chemical binding]; other site 395494008956 Q-loop/lid; other site 395494008957 ABC transporter signature motif; other site 395494008958 Walker B; other site 395494008959 D-loop; other site 395494008960 H-loop/switch region; other site 395494008961 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 395494008962 ABC-2 type transporter; Region: ABC2_membrane; cl17235 395494008963 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395494008964 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494008965 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494008966 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494008967 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 395494008968 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395494008969 DNA-binding site [nucleotide binding]; DNA binding site 395494008970 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 395494008971 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 395494008972 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 395494008973 substrate binding pocket [chemical binding]; other site 395494008974 membrane-bound complex binding site; other site 395494008975 hinge residues; other site 395494008976 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 395494008977 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 395494008978 Walker A/P-loop; other site 395494008979 ATP binding site [chemical binding]; other site 395494008980 Q-loop/lid; other site 395494008981 ABC transporter signature motif; other site 395494008982 Walker B; other site 395494008983 D-loop; other site 395494008984 H-loop/switch region; other site 395494008985 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 395494008986 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395494008987 dimer interface [polypeptide binding]; other site 395494008988 conserved gate region; other site 395494008989 ABC-ATPase subunit interface; other site 395494008990 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 395494008991 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395494008992 dimer interface [polypeptide binding]; other site 395494008993 conserved gate region; other site 395494008994 ABC-ATPase subunit interface; other site 395494008995 phosphonate C-P lyase system protein PhnG; Region: PhnG_redo; TIGR03293 395494008996 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 395494008997 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 395494008998 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 395494008999 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 395494009000 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395494009001 Walker A/P-loop; other site 395494009002 ATP binding site [chemical binding]; other site 395494009003 Q-loop/lid; other site 395494009004 ABC transporter signature motif; other site 395494009005 Walker B; other site 395494009006 D-loop; other site 395494009007 H-loop/switch region; other site 395494009008 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395494009009 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 395494009010 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395494009011 Walker A/P-loop; other site 395494009012 ATP binding site [chemical binding]; other site 395494009013 Q-loop/lid; other site 395494009014 ABC transporter signature motif; other site 395494009015 Walker B; other site 395494009016 D-loop; other site 395494009017 H-loop/switch region; other site 395494009018 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 395494009019 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 395494009020 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 395494009021 active site 395494009022 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 395494009023 active site 395494009024 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395494009025 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 395494009026 EamA-like transporter family; Region: EamA; cl17759 395494009027 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 395494009028 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 395494009029 active site 395494009030 catalytic residues [active] 395494009031 DNA binding site [nucleotide binding] 395494009032 Int/Topo IB signature motif; other site 395494009033 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 395494009034 AAA domain; Region: AAA_30; pfam13604 395494009035 Family description; Region: UvrD_C_2; pfam13538 395494009036 ABC-2 type transporter; Region: ABC2_membrane; cl17235 395494009037 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395494009038 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 395494009039 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494009040 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 395494009041 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494009042 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 395494009043 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 395494009044 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 395494009045 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 395494009046 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 395494009047 putative Mg++ binding site [ion binding]; other site 395494009048 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 395494009049 nucleotide binding region [chemical binding]; other site 395494009050 ATP-binding site [chemical binding]; other site 395494009051 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 395494009052 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 395494009053 dimerization interface [polypeptide binding]; other site 395494009054 domain crossover interface; other site 395494009055 redox-dependent activation switch; other site 395494009056 dUTPase; Region: dUTPase_2; pfam08761 395494009057 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 395494009058 active site 395494009059 homodimer interface [polypeptide binding]; other site 395494009060 metal binding site [ion binding]; metal-binding site 395494009061 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494009062 active site 395494009063 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 395494009064 phosphorylation site [posttranslational modification] 395494009065 intermolecular recognition site; other site 395494009066 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494009067 active site 395494009068 phosphorylation site [posttranslational modification] 395494009069 intermolecular recognition site; other site 395494009070 dimerization interface [polypeptide binding]; other site 395494009071 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494009072 metal binding site [ion binding]; metal-binding site 395494009073 active site 395494009074 I-site; other site 395494009075 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 395494009076 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 395494009077 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 395494009078 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 395494009079 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 395494009080 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 395494009081 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 395494009082 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395494009083 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494009084 metal binding site [ion binding]; metal-binding site 395494009085 active site 395494009086 I-site; other site 395494009087 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494009088 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 395494009089 dimerization interface [polypeptide binding]; other site 395494009090 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494009091 dimer interface [polypeptide binding]; other site 395494009092 putative CheW interface [polypeptide binding]; other site 395494009093 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 395494009094 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395494009095 putative acyl-acceptor binding pocket; other site 395494009096 Virulence protein [General function prediction only]; Region: COG3943 395494009097 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 395494009098 DEAD-like helicases superfamily; Region: DEXDc; smart00487 395494009099 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 395494009100 ATP binding site [chemical binding]; other site 395494009101 putative Mg++ binding site [ion binding]; other site 395494009102 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 395494009103 ATP-binding site [chemical binding]; other site 395494009104 Helicase associated domain; Region: HA; pfam03457 395494009105 Helicase associated domain; Region: HA; pfam03457 395494009106 Helicase associated domain; Region: HA; pfam03457 395494009107 Helicase associated domain; Region: HA; pfam03457 395494009108 Helicase associated domain; Region: HA; pfam03457 395494009109 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 395494009110 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 395494009111 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 395494009112 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 395494009113 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395494009114 catalytic residues [active] 395494009115 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 395494009116 RNA binding surface [nucleotide binding]; other site 395494009117 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 395494009118 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 395494009119 Sporulation related domain; Region: SPOR; pfam05036 395494009120 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 395494009121 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 395494009122 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 395494009123 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 395494009124 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 395494009125 rod shape-determining protein MreC; Provisional; Region: PRK13922 395494009126 rod shape-determining protein MreC; Region: MreC; pfam04085 395494009127 rod shape-determining protein MreB; Provisional; Region: PRK13927 395494009128 MreB and similar proteins; Region: MreB_like; cd10225 395494009129 nucleotide binding site [chemical binding]; other site 395494009130 Mg binding site [ion binding]; other site 395494009131 putative protofilament interaction site [polypeptide binding]; other site 395494009132 RodZ interaction site [polypeptide binding]; other site 395494009133 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 395494009134 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395494009135 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 395494009136 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 395494009137 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 395494009138 GatB domain; Region: GatB_Yqey; smart00845 395494009139 NlpC/P60 family; Region: NLPC_P60; pfam00877 395494009140 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 395494009141 POPLD (NUC188) domain; Region: POPLD; pfam08170 395494009142 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395494009143 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 395494009144 lipoyl attachment site [posttranslational modification]; other site 395494009145 glycine dehydrogenase; Provisional; Region: PRK05367 395494009146 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 395494009147 tetramer interface [polypeptide binding]; other site 395494009148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494009149 catalytic residue [active] 395494009150 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 395494009151 tetramer interface [polypeptide binding]; other site 395494009152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494009153 catalytic residue [active] 395494009154 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 395494009155 dimer interface [polypeptide binding]; other site 395494009156 catalytic triad [active] 395494009157 peroxidatic and resolving cysteines [active] 395494009158 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395494009159 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 395494009160 substrate binding site [chemical binding]; other site 395494009161 ATP binding site [chemical binding]; other site 395494009162 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 395494009163 cyclase homology domain; Region: CHD; cd07302 395494009164 nucleotidyl binding site; other site 395494009165 metal binding site [ion binding]; metal-binding site 395494009166 dimer interface [polypeptide binding]; other site 395494009167 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 395494009168 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 395494009169 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 395494009170 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 395494009171 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 395494009172 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 395494009173 active site 395494009174 metal binding site [ion binding]; metal-binding site 395494009175 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 395494009176 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 395494009177 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 395494009178 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 395494009179 active site 395494009180 Methyltransferase domain; Region: Methyltransf_11; pfam08241 395494009181 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 395494009182 O-Antigen ligase; Region: Wzy_C; pfam04932 395494009183 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395494009184 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 395494009185 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395494009186 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 395494009187 active site 395494009188 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 395494009189 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 395494009190 putative metal binding site; other site 395494009191 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 395494009192 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 395494009193 NAD(P) binding site [chemical binding]; other site 395494009194 homodimer interface [polypeptide binding]; other site 395494009195 substrate binding site [chemical binding]; other site 395494009196 active site 395494009197 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 395494009198 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 395494009199 Mg++ binding site [ion binding]; other site 395494009200 putative catalytic motif [active] 395494009201 putative substrate binding site [chemical binding]; other site 395494009202 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395494009203 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 395494009204 putative active site [active] 395494009205 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 395494009206 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 395494009207 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 395494009208 substrate binding site; other site 395494009209 tetramer interface; other site 395494009210 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 395494009211 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 395494009212 NADP binding site [chemical binding]; other site 395494009213 active site 395494009214 putative substrate binding site [chemical binding]; other site 395494009215 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 395494009216 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 395494009217 NAD binding site [chemical binding]; other site 395494009218 substrate binding site [chemical binding]; other site 395494009219 homodimer interface [polypeptide binding]; other site 395494009220 active site 395494009221 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 395494009222 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395494009223 putative NAD(P) binding site [chemical binding]; other site 395494009224 active site 395494009225 putative substrate binding site [chemical binding]; other site 395494009226 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 395494009227 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 395494009228 active site 395494009229 homodimer interface [polypeptide binding]; other site 395494009230 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 395494009231 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 395494009232 NAD(P) binding site [chemical binding]; other site 395494009233 homodimer interface [polypeptide binding]; other site 395494009234 substrate binding site [chemical binding]; other site 395494009235 active site 395494009236 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 395494009237 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 395494009238 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 395494009239 NADP binding site [chemical binding]; other site 395494009240 active site 395494009241 putative substrate binding site [chemical binding]; other site 395494009242 putative glycosyl transferase; Provisional; Region: PRK10307 395494009243 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 395494009244 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395494009245 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 395494009246 putative ADP-binding pocket [chemical binding]; other site 395494009247 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395494009248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494009249 NAD(P) binding site [chemical binding]; other site 395494009250 active site 395494009251 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 395494009252 putative ligand binding site [chemical binding]; other site 395494009253 putative catalytic site [active] 395494009254 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 395494009255 trimer interface [polypeptide binding]; other site 395494009256 active site 395494009257 substrate binding site [chemical binding]; other site 395494009258 CoA binding site [chemical binding]; other site 395494009259 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 395494009260 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 395494009261 active site 395494009262 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 395494009263 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 395494009264 active site 395494009265 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395494009266 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 395494009267 Walker A/P-loop; other site 395494009268 ATP binding site [chemical binding]; other site 395494009269 Q-loop/lid; other site 395494009270 ABC transporter signature motif; other site 395494009271 Walker B; other site 395494009272 D-loop; other site 395494009273 H-loop/switch region; other site 395494009274 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395494009275 CDP-tyvelose 2-epimerase, extended (e) SDRs; Region: CDP_TE_SDR_e; cd05258 395494009276 NAD binding site [chemical binding]; other site 395494009277 homotetramer interface [polypeptide binding]; other site 395494009278 homodimer interface [polypeptide binding]; other site 395494009279 active site 395494009280 substrate binding site [chemical binding]; other site 395494009281 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395494009282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494009283 NAD(P) binding site [chemical binding]; other site 395494009284 active site 395494009285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494009286 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395494009287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494009288 NAD(P) binding site [chemical binding]; other site 395494009289 active site 395494009290 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 395494009291 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395494009292 PYR/PP interface [polypeptide binding]; other site 395494009293 dimer interface [polypeptide binding]; other site 395494009294 TPP binding site [chemical binding]; other site 395494009295 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395494009296 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 395494009297 TPP-binding site [chemical binding]; other site 395494009298 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 395494009299 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 395494009300 inhibitor-cofactor binding pocket; inhibition site 395494009301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494009302 catalytic residue [active] 395494009303 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 395494009304 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 395494009305 NAD binding site [chemical binding]; other site 395494009306 homotetramer interface [polypeptide binding]; other site 395494009307 homodimer interface [polypeptide binding]; other site 395494009308 substrate binding site [chemical binding]; other site 395494009309 active site 395494009310 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 395494009311 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 395494009312 substrate binding site; other site 395494009313 EPS-associated transcriptional regulator, MarR family; Region: MarR_EPS; TIGR04176 395494009314 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 395494009315 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 395494009316 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 395494009317 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 395494009318 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 395494009319 short chain dehydrogenase; Provisional; Region: PRK07102 395494009320 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 395494009321 NAD(P) binding site [chemical binding]; other site 395494009322 active site 395494009323 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 395494009324 FAD binding domain; Region: FAD_binding_4; pfam01565 395494009325 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 395494009326 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 395494009327 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 395494009328 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 395494009329 S-adenosylmethionine binding site [chemical binding]; other site 395494009330 ThiC-associated domain; Region: ThiC-associated; pfam13667 395494009331 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 395494009332 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 395494009333 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 395494009334 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 395494009335 oxidative damage protection protein; Provisional; Region: PRK05408 395494009336 polyphosphate kinase; Provisional; Region: PRK05443 395494009337 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 395494009338 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 395494009339 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 395494009340 putative domain interface [polypeptide binding]; other site 395494009341 putative active site [active] 395494009342 catalytic site [active] 395494009343 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 395494009344 putative domain interface [polypeptide binding]; other site 395494009345 putative active site [active] 395494009346 catalytic site [active] 395494009347 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 395494009348 catalytic core [active] 395494009349 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 395494009350 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 395494009351 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 395494009352 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 395494009353 Sulfate transporter family; Region: Sulfate_transp; pfam00916 395494009354 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 395494009355 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395494009356 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 395494009357 ligand binding site [chemical binding]; other site 395494009358 flexible hinge region; other site 395494009359 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 395494009360 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 395494009361 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 395494009362 trimer interface [polypeptide binding]; other site 395494009363 putative metal binding site [ion binding]; other site 395494009364 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 395494009365 active site 395494009366 substrate binding pocket [chemical binding]; other site 395494009367 dimer interface [polypeptide binding]; other site 395494009368 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 395494009369 active site 395494009370 catalytic site [active] 395494009371 substrate binding site [chemical binding]; other site 395494009372 phosphoribulokinase; Provisional; Region: PRK15453 395494009373 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 395494009374 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 395494009375 HIGH motif; other site 395494009376 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 395494009377 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395494009378 active site 395494009379 KMSKS motif; other site 395494009380 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 395494009381 tRNA binding surface [nucleotide binding]; other site 395494009382 Lipopolysaccharide-assembly; Region: LptE; cl01125 395494009383 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 395494009384 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 395494009385 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 395494009386 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 395494009387 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 395494009388 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395494009389 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 395494009390 DsbD alpha interface [polypeptide binding]; other site 395494009391 catalytic residues [active] 395494009392 Dehydroquinase class II; Region: DHquinase_II; pfam01220 395494009393 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 395494009394 trimer interface [polypeptide binding]; other site 395494009395 active site 395494009396 dimer interface [polypeptide binding]; other site 395494009397 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 395494009398 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 395494009399 carboxyltransferase (CT) interaction site; other site 395494009400 biotinylation site [posttranslational modification]; other site 395494009401 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 395494009402 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395494009403 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 395494009404 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 395494009405 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 395494009406 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 395494009407 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 395494009408 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 395494009409 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395494009410 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 395494009411 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395494009412 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 395494009413 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395494009414 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 395494009415 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395494009416 HlyD family secretion protein; Region: HlyD_3; pfam13437 395494009417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 395494009418 AAA domain; Region: AAA_33; pfam13671 395494009419 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 395494009420 active site 395494009421 Predicted methyltransferases [General function prediction only]; Region: COG0313 395494009422 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 395494009423 putative SAM binding site [chemical binding]; other site 395494009424 putative homodimer interface [polypeptide binding]; other site 395494009425 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 395494009426 putative ligand binding site [chemical binding]; other site 395494009427 hypothetical protein; Reviewed; Region: PRK12497 395494009428 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 395494009429 dimer interface [polypeptide binding]; other site 395494009430 active site 395494009431 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 395494009432 BON domain; Region: BON; pfam04972 395494009433 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 395494009434 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 395494009435 active site 395494009436 nucleotide binding site [chemical binding]; other site 395494009437 HIGH motif; other site 395494009438 KMSKS motif; other site 395494009439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 395494009440 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 395494009441 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 395494009442 S-adenosylmethionine binding site [chemical binding]; other site 395494009443 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 395494009444 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 395494009445 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 395494009446 PhnA protein; Region: PhnA; pfam03831 395494009447 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 395494009448 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 395494009449 active site 395494009450 Tim44-like domain; Region: Tim44; pfam04280 395494009451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 395494009452 SCP-2 sterol transfer family; Region: SCP2; pfam02036 395494009453 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 395494009454 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 395494009455 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 395494009456 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 395494009457 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 395494009458 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 395494009459 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395494009460 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 395494009461 P-loop; other site 395494009462 Magnesium ion binding site [ion binding]; other site 395494009463 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 395494009464 Magnesium ion binding site [ion binding]; other site 395494009465 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494009466 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 395494009467 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 395494009468 ATP binding site [chemical binding]; other site 395494009469 Mg2+ binding site [ion binding]; other site 395494009470 G-X-G motif; other site 395494009471 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 395494009472 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 395494009473 Integrase core domain; Region: rve; pfam00665 395494009474 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 395494009475 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 395494009476 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 395494009477 ATP binding site [chemical binding]; other site 395494009478 putative Mg++ binding site [ion binding]; other site 395494009479 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 395494009480 HsdM N-terminal domain; Region: HsdM_N; pfam12161 395494009481 Methyltransferase domain; Region: Methyltransf_26; pfam13659 395494009482 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 395494009483 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494009484 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 395494009485 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494009486 TniQ; Region: TniQ; pfam06527 395494009487 non-specific DNA binding site [nucleotide binding]; other site 395494009488 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 395494009489 sequence-specific DNA binding site [nucleotide binding]; other site 395494009490 salt bridge; other site 395494009491 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 395494009492 non-specific DNA binding site [nucleotide binding]; other site 395494009493 salt bridge; other site 395494009494 sequence-specific DNA binding site [nucleotide binding]; other site 395494009495 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 395494009496 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 395494009497 Walker A/P-loop; other site 395494009498 ATP binding site [chemical binding]; other site 395494009499 Q-loop/lid; other site 395494009500 ABC transporter signature motif; other site 395494009501 Walker B; other site 395494009502 D-loop; other site 395494009503 H-loop/switch region; other site 395494009504 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395494009505 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 395494009506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 395494009507 dimer interface [polypeptide binding]; other site 395494009508 conserved gate region; other site 395494009509 putative PBP binding loops; other site 395494009510 ABC-ATPase subunit interface; other site 395494009511 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395494009512 Thermostable Phosphite Dehydrogenase; Region: PTDH; cd12157 395494009513 homodimer interface [polypeptide binding]; other site 395494009514 ligand binding site [chemical binding]; other site 395494009515 NAD binding site [chemical binding]; other site 395494009516 catalytic site [active] 395494009517 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395494009518 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395494009519 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 395494009520 dimerization interface [polypeptide binding]; other site 395494009521 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 395494009522 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 395494009523 glutaminase active site [active] 395494009524 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 395494009525 dimer interface [polypeptide binding]; other site 395494009526 active site 395494009527 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 395494009528 dimer interface [polypeptide binding]; other site 395494009529 active site 395494009530 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 395494009531 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 395494009532 Substrate binding site; other site 395494009533 Mg++ binding site; other site 395494009534 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 395494009535 active site 395494009536 substrate binding site [chemical binding]; other site 395494009537 CoA binding site [chemical binding]; other site 395494009538 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 395494009539 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 395494009540 gamma subunit interface [polypeptide binding]; other site 395494009541 epsilon subunit interface [polypeptide binding]; other site 395494009542 LBP interface [polypeptide binding]; other site 395494009543 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 395494009544 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 395494009545 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 395494009546 alpha subunit interaction interface [polypeptide binding]; other site 395494009547 Walker A motif; other site 395494009548 ATP binding site [chemical binding]; other site 395494009549 Walker B motif; other site 395494009550 inhibitor binding site; inhibition site 395494009551 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395494009552 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 395494009553 core domain interface [polypeptide binding]; other site 395494009554 delta subunit interface [polypeptide binding]; other site 395494009555 epsilon subunit interface [polypeptide binding]; other site 395494009556 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 395494009557 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 395494009558 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 395494009559 beta subunit interaction interface [polypeptide binding]; other site 395494009560 Walker A motif; other site 395494009561 ATP binding site [chemical binding]; other site 395494009562 Walker B motif; other site 395494009563 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395494009564 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 395494009565 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 395494009566 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 395494009567 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 395494009568 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 395494009569 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 395494009570 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 395494009571 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 395494009572 ParB-like nuclease domain; Region: ParBc; pfam02195 395494009573 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395494009574 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 395494009575 P-loop; other site 395494009576 Magnesium ion binding site [ion binding]; other site 395494009577 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 395494009578 Magnesium ion binding site [ion binding]; other site 395494009579 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 395494009580 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 395494009581 S-adenosylmethionine binding site [chemical binding]; other site 395494009582 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 395494009583 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 395494009584 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 395494009585 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 395494009586 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 395494009587 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 395494009588 trmE is a tRNA modification GTPase; Region: trmE; cd04164 395494009589 G1 box; other site 395494009590 GTP/Mg2+ binding site [chemical binding]; other site 395494009591 Switch I region; other site 395494009592 G2 box; other site 395494009593 Switch II region; other site 395494009594 G3 box; other site 395494009595 G4 box; other site 395494009596 G5 box; other site 395494009597 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 395494009598 membrane protein insertase; Provisional; Region: PRK01318 395494009599 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 395494009600 Haemolytic domain; Region: Haemolytic; pfam01809