-- dump date 20120504_144955 -- 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 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; cl09155 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 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; cl09155 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; cl01230 395494000040 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; cl09155 395494000041 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 395494000042 AMP-binding enzyme; Region: AMP-binding; cl15778 395494000043 AMP-binding enzyme; Region: AMP-binding; cl15778 395494000044 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395494000045 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395494000046 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395494000047 N-terminal domain interface [polypeptide binding]; other site 395494000048 dimer interface [polypeptide binding]; other site 395494000049 substrate binding pocket (H-site) [chemical binding]; other site 395494000050 carboxy-terminal protease; Provisional; Region: PRK11186 395494000051 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 395494000052 protein binding site [polypeptide binding]; other site 395494000053 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 395494000054 Catalytic dyad [active] 395494000055 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 395494000056 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 395494000057 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 395494000058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000059 Biofilm formation and stress response factor; Region: BsmA; cl01794 395494000060 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 395494000061 sensory histidine kinase AtoS; Provisional; Region: PRK11360 395494000062 PAS domain S-box; Region: sensory_box; TIGR00229 395494000063 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 395494000064 putative active site [active] 395494000065 heme pocket [chemical binding]; other site 395494000066 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000067 metal binding site [ion binding]; metal-binding site 395494000068 active site 395494000069 I-site; other site 395494000070 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 395494000071 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494000072 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494000073 dimer interface [polypeptide binding]; other site 395494000074 putative CheW interface [polypeptide binding]; other site 395494000075 Response regulator receiver domain; Region: Response_reg; pfam00072 395494000076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494000077 active site 395494000078 phosphorylation site [posttranslational modification] 395494000079 intermolecular recognition site; other site 395494000080 dimerization interface [polypeptide binding]; other site 395494000081 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 395494000082 sensor protein RstB; Provisional; Region: PRK10604 395494000083 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 395494000084 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 395494000085 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 395494000086 active site 395494000087 interdomain interaction site; other site 395494000088 putative metal-binding site [ion binding]; other site 395494000089 nucleotide binding site [chemical binding]; other site 395494000090 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 395494000091 domain I; other site 395494000092 DNA binding groove [nucleotide binding] 395494000093 phosphate binding site [ion binding]; other site 395494000094 domain II; other site 395494000095 domain III; other site 395494000096 nucleotide binding site [chemical binding]; other site 395494000097 catalytic site [active] 395494000098 domain IV; other site 395494000099 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 395494000100 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 395494000101 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 395494000102 Protein of unknown function (DUF494); Region: DUF494; cl01103 395494000103 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 395494000104 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 395494000105 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 395494000106 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 395494000107 active site 395494000108 catalytic residues [active] 395494000109 metal binding site [ion binding]; metal-binding site 395494000110 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 395494000111 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 395494000112 putative active site [active] 395494000113 substrate binding site [chemical binding]; other site 395494000114 putative cosubstrate binding site; other site 395494000115 catalytic site [active] 395494000116 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 395494000117 substrate binding site [chemical binding]; other site 395494000118 16S rRNA methyltransferase B; Provisional; Region: PRK10901 395494000119 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 395494000120 putative RNA binding site [nucleotide binding]; other site 395494000121 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 395494000122 S-adenosylmethionine binding site [chemical binding]; other site 395494000123 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 395494000124 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 395494000125 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 395494000126 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 395494000127 putative active site [active] 395494000128 heme pocket [chemical binding]; other site 395494000129 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 395494000130 dimer interface [polypeptide binding]; other site 395494000131 phosphorylation site [posttranslational modification] 395494000132 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 395494000133 ATP binding site [chemical binding]; other site 395494000134 Mg2+ binding site [ion binding]; other site 395494000135 G-X-G motif; other site 395494000136 Response regulator receiver domain; Region: Response_reg; pfam00072 395494000137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494000138 active site 395494000139 phosphorylation site [posttranslational modification] 395494000140 intermolecular recognition site; other site 395494000141 dimerization interface [polypeptide binding]; other site 395494000142 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395494000143 transketolase; Reviewed; Region: PRK12753 395494000144 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 395494000145 TPP-binding site [chemical binding]; other site 395494000146 dimer interface [polypeptide binding]; other site 395494000147 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 395494000148 PYR/PP interface [polypeptide binding]; other site 395494000149 dimer interface [polypeptide binding]; other site 395494000150 TPP binding site [chemical binding]; other site 395494000151 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395494000152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000153 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 395494000154 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 395494000155 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 395494000156 Phosphoglycerate kinase; Region: PGK; pfam00162 395494000157 substrate binding site [chemical binding]; other site 395494000158 hinge regions; other site 395494000159 ADP binding site [chemical binding]; other site 395494000160 catalytic site [active] 395494000161 pyruvate kinase; Provisional; Region: PRK05826 395494000162 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; cl09155 395494000163 domain interfaces; other site 395494000164 active site 395494000165 hypothetical protein; Provisional; Region: PRK08185 395494000166 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 395494000167 intersubunit interface [polypeptide binding]; other site 395494000168 active site 395494000169 zinc binding site [ion binding]; other site 395494000170 Na+ binding site [ion binding]; other site 395494000171 Helix-turn-helix domains; Region: HTH; cl00088 395494000172 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 395494000173 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 395494000174 putative dimerization interface [polypeptide binding]; other site 395494000175 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 395494000176 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 395494000177 dimer interface [polypeptide binding]; other site 395494000178 active site 395494000179 catalytic residue [active] 395494000180 metal binding site [ion binding]; metal-binding site 395494000181 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494000182 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 395494000183 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 395494000184 metal ion-dependent adhesion site (MIDAS); other site 395494000185 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 395494000186 AMP binding site [chemical binding]; other site 395494000187 metal binding site [ion binding]; metal-binding site 395494000188 active site 395494000189 AIR carboxylase; Region: AIRC; cl00310 395494000190 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 395494000191 ATP binding site [chemical binding]; other site 395494000192 active site 395494000193 substrate binding site [chemical binding]; other site 395494000194 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 395494000195 active site clefts [active] 395494000196 zinc binding site [ion binding]; other site 395494000197 dimer interface [polypeptide binding]; other site 395494000198 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 395494000199 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 395494000200 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395494000201 active site 395494000202 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 395494000203 putative active site [active] 395494000204 putative DNA binding site [nucleotide binding]; other site 395494000205 putative phosphate binding site [ion binding]; other site 395494000206 putative catalytic site [active] 395494000207 metal binding site A [ion binding]; metal-binding site 395494000208 putative AP binding site [nucleotide binding]; other site 395494000209 putative metal binding site B [ion binding]; other site 395494000210 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395494000211 ligand binding site [chemical binding]; other site 395494000212 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; smart01021 395494000213 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 395494000214 active site residue [active] 395494000215 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 395494000216 Cation efflux family; Region: Cation_efflux; cl00316 395494000217 glutamine synthetase; Provisional; Region: glnA; PRK09469 395494000218 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 395494000219 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395494000220 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 395494000221 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 395494000222 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 395494000223 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 395494000224 dimer interface [polypeptide binding]; other site 395494000225 phosphorylation site [posttranslational modification] 395494000226 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 395494000227 ATP binding site [chemical binding]; other site 395494000228 Mg2+ binding site [ion binding]; other site 395494000229 G-X-G motif; other site 395494000230 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 395494000231 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494000232 active site 395494000233 phosphorylation site [posttranslational modification] 395494000234 intermolecular recognition site; other site 395494000235 dimerization interface [polypeptide binding]; other site 395494000236 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 395494000237 Walker A motif; other site 395494000238 ATP binding site [chemical binding]; other site 395494000239 Walker B motif; other site 395494000240 arginine finger; other site 395494000241 Helix-turn-helix domains; Region: HTH; cl00088 395494000242 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 395494000243 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 395494000244 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395494000245 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494000246 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395494000247 Protein of unknown function, DUF486; Region: DUF486; cl01236 395494000248 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 395494000249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000250 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494000251 4Fe-4S binding domain; Region: Fer4; cl02805 395494000252 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 395494000253 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 395494000254 TPP-binding site [chemical binding]; other site 395494000255 putative dimer interface [polypeptide binding]; other site 395494000256 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 395494000257 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 395494000258 dimer interface [polypeptide binding]; other site 395494000259 PYR/PP interface [polypeptide binding]; other site 395494000260 TPP binding site [chemical binding]; other site 395494000261 substrate binding site [chemical binding]; other site 395494000262 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 395494000263 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 395494000264 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 395494000265 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 395494000266 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 395494000267 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 395494000268 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 395494000269 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 395494000270 substrate binding pocket [chemical binding]; other site 395494000271 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 395494000272 B12 binding site [chemical binding]; other site 395494000273 cobalt ligand [ion binding]; other site 395494000274 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 395494000275 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 395494000276 Phosphate-starvation-inducible E; Region: PsiE; cl01264 395494000277 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 395494000278 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 395494000279 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494000280 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 395494000281 Membrane fusogenic activity; Region: BMFP; cl01115 395494000282 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 395494000283 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395494000284 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395494000285 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 395494000286 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494000287 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 395494000288 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494000289 dimer interface [polypeptide binding]; other site 395494000290 putative CheW interface [polypeptide binding]; other site 395494000291 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 395494000292 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 395494000293 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494000294 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 395494000295 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 395494000296 dimer interface [polypeptide binding]; other site 395494000297 phosphorylation site [posttranslational modification] 395494000298 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 395494000299 ATP binding site [chemical binding]; other site 395494000300 Mg2+ binding site [ion binding]; other site 395494000301 G-X-G motif; other site 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 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395494000306 putative CheW interface [polypeptide binding]; other site 395494000307 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395494000308 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395494000309 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395494000310 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 395494000311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 395494000312 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 395494000313 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 395494000314 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 395494000315 Uncharacterized conserved protein [Function unknown]; Region: COG2308 395494000316 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 395494000317 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 395494000318 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 395494000319 active site 395494000320 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 395494000321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000322 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494000323 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395494000324 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000325 Zn2+ binding site [ion binding]; other site 395494000326 Mg2+ binding site [ion binding]; other site 395494000327 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 395494000328 FOG: CBS domain [General function prediction only]; Region: COG0517 395494000329 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 395494000330 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000331 metal binding site [ion binding]; metal-binding site 395494000332 active site 395494000333 I-site; other site 395494000334 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000335 Zn2+ binding site [ion binding]; other site 395494000336 Mg2+ binding site [ion binding]; other site 395494000337 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000338 Zn2+ binding site [ion binding]; other site 395494000339 Mg2+ binding site [ion binding]; other site 395494000340 GAF domain; Region: GAF; cl15785 395494000341 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000342 Zn2+ binding site [ion binding]; other site 395494000343 Mg2+ binding site [ion binding]; other site 395494000344 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 395494000345 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 395494000346 DNA binding residues [nucleotide binding] 395494000347 dimerization interface [polypeptide binding]; other site 395494000348 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 395494000349 active site residue [active] 395494000350 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395494000351 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 395494000352 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494000353 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494000354 dimer interface [polypeptide binding]; other site 395494000355 putative CheW interface [polypeptide binding]; other site 395494000356 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 395494000357 active site 395494000358 FMN binding site [chemical binding]; other site 395494000359 substrate binding site [chemical binding]; other site 395494000360 homotetramer interface [polypeptide binding]; other site 395494000361 catalytic residue [active] 395494000362 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395494000363 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395494000364 DNA-binding site [nucleotide binding]; DNA binding site 395494000365 FCD domain; Region: FCD; cl11656 395494000366 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 395494000367 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 395494000368 tetramer interface [polypeptide binding]; other site 395494000369 active site 395494000370 Mg2+/Mn2+ binding site [ion binding]; other site 395494000371 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 395494000372 Citrate synthase; Region: Citrate_synt; pfam00285 395494000373 oxalacetate binding site [chemical binding]; other site 395494000374 citrylCoA binding site [chemical binding]; other site 395494000375 coenzyme A binding site [chemical binding]; other site 395494000376 catalytic triad [active] 395494000377 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 395494000378 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 395494000379 substrate binding site [chemical binding]; other site 395494000380 ligand binding site [chemical binding]; other site 395494000381 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 395494000382 substrate binding site [chemical binding]; other site 395494000383 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 395494000384 PrpF protein; Region: PrpF; pfam04303 395494000385 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 395494000386 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 395494000387 AMP-binding enzyme; Region: AMP-binding; cl15778 395494000388 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494000389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000390 Predicted dehydrogenase [General function prediction only]; Region: COG0579 395494000391 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 395494000392 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 395494000393 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 395494000394 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494000395 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 395494000396 active site 395494000397 ATP binding site [chemical binding]; other site 395494000398 substrate binding site [chemical binding]; other site 395494000399 activation loop (A-loop); other site 395494000400 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494000401 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 395494000402 dimerization interface [polypeptide binding]; other site 395494000403 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 395494000404 PAS fold; Region: PAS_3; pfam08447 395494000405 putative active site [active] 395494000406 heme pocket [chemical binding]; other site 395494000407 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 395494000408 PAS domain; Region: PAS_9; pfam13426 395494000409 putative active site [active] 395494000410 heme pocket [chemical binding]; other site 395494000411 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000412 metal binding site [ion binding]; metal-binding site 395494000413 active site 395494000414 I-site; other site 395494000415 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 395494000416 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395494000417 NMT1-like family; Region: NMT1_2; cl15260 395494000418 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 395494000419 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 395494000420 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 395494000421 putative active site [active] 395494000422 putative substrate binding site [chemical binding]; other site 395494000423 putative cosubstrate binding site; other site 395494000424 catalytic site [active] 395494000425 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395494000426 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 395494000427 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 395494000428 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494000429 Walker A/P-loop; other site 395494000430 ATP binding site [chemical binding]; other site 395494000431 Q-loop/lid; other site 395494000432 ABC transporter signature motif; other site 395494000433 Walker B; other site 395494000434 D-loop; other site 395494000435 H-loop/switch region; other site 395494000436 ABC transporter; Region: ABC_tran_2; pfam12848 395494000437 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395494000438 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395494000439 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 395494000440 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395494000441 ligand binding site [chemical binding]; other site 395494000442 Glutamate-cysteine ligase; Region: GshA; pfam08886 395494000443 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 395494000444 ApbE family; Region: ApbE; cl00643 395494000445 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 395494000446 active pocket/dimerization site; other site 395494000447 active site 395494000448 phosphorylation site [posttranslational modification] 395494000449 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 395494000450 dimerization domain swap beta strand [polypeptide binding]; other site 395494000451 regulatory protein interface [polypeptide binding]; other site 395494000452 active site 395494000453 regulatory phosphorylation site [posttranslational modification]; other site 395494000454 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 395494000455 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 395494000456 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 395494000457 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; cl09155 395494000458 Histidine kinase; Region: HisKA_3; pfam07730 395494000459 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 395494000460 ATP binding site [chemical binding]; other site 395494000461 Mg2+ binding site [ion binding]; other site 395494000462 G-X-G motif; other site 395494000463 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395494000464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494000465 active site 395494000466 phosphorylation site [posttranslational modification] 395494000467 intermolecular recognition site; other site 395494000468 dimerization interface [polypeptide binding]; other site 395494000469 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 395494000470 DNA binding residues [nucleotide binding] 395494000471 dimerization interface [polypeptide binding]; other site 395494000472 CheB methylesterase; Region: CheB_methylest; pfam01339 395494000473 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 395494000474 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395494000475 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000476 PAS domain; Region: PAS_10; pfam13596 395494000477 PAS fold; Region: PAS_4; pfam08448 395494000478 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 395494000479 putative active site [active] 395494000480 heme pocket [chemical binding]; other site 395494000481 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 395494000482 PAS domain; Region: PAS_9; pfam13426 395494000483 putative active site [active] 395494000484 heme pocket [chemical binding]; other site 395494000485 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000486 metal binding site [ion binding]; metal-binding site 395494000487 active site 395494000488 I-site; other site 395494000489 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 395494000490 PAS fold; Region: PAS_2; pfam08446 395494000491 GAF domain; Region: GAF; cl15785 395494000492 Phytochrome region; Region: PHY; pfam00360 395494000493 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; cl15243 395494000494 heme binding pocket [chemical binding]; other site 395494000495 heme ligand [chemical binding]; other site 395494000496 PAS fold; Region: PAS_2; pfam08446 395494000497 GAF domain; Region: GAF; cl15785 395494000498 Phytochrome region; Region: PHY; pfam00360 395494000499 PAS domain S-box; Region: sensory_box; TIGR00229 395494000500 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 395494000501 putative active site [active] 395494000502 heme pocket [chemical binding]; other site 395494000503 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 395494000504 PAS domain; Region: PAS_9; pfam13426 395494000505 putative active site [active] 395494000506 heme pocket [chemical binding]; other site 395494000507 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 395494000508 PAS domain; Region: PAS_9; pfam13426 395494000509 putative active site [active] 395494000510 heme pocket [chemical binding]; other site 395494000511 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000512 metal binding site [ion binding]; metal-binding site 395494000513 active site 395494000514 I-site; other site 395494000515 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 395494000516 DNA photolyase; Region: DNA_photolyase; pfam00875 395494000517 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 395494000518 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 395494000519 HDOD domain; Region: HDOD; pfam08668 395494000520 Response regulator receiver domain; Region: Response_reg; pfam00072 395494000521 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494000522 active site 395494000523 phosphorylation site [posttranslational modification] 395494000524 intermolecular recognition site; other site 395494000525 dimerization interface [polypeptide binding]; other site 395494000526 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000527 metal binding site [ion binding]; metal-binding site 395494000528 active site 395494000529 I-site; other site 395494000530 HopJ type III effector protein; Region: HopJ; pfam08888 395494000531 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395494000532 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 395494000533 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 395494000534 S-adenosylmethionine binding site [chemical binding]; other site 395494000535 muropeptide transporter; Validated; Region: ampG; PRK11010 395494000536 AmpG-related permease; Region: 2A0125; TIGR00901 395494000537 N-acetylglutamate synthase; Validated; Region: PRK05279 395494000538 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 395494000539 putative feedback inhibition sensing region; other site 395494000540 putative nucleotide binding site [chemical binding]; other site 395494000541 putative substrate binding site [chemical binding]; other site 395494000542 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395494000543 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 395494000544 active site 1 [active] 395494000545 dimer interface [polypeptide binding]; other site 395494000546 hexamer interface [polypeptide binding]; other site 395494000547 active site 2 [active] 395494000548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 395494000549 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 395494000550 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 395494000551 putative catalytic residue [active] 395494000552 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 395494000553 active site 395494000554 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 395494000555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000556 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 395494000557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000558 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 395494000559 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 395494000560 Cation transport protein; Region: TrkH; cl10514 395494000561 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 395494000562 putative binding surface; other site 395494000563 active site 395494000564 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 395494000565 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 395494000566 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 includes...; Region: RuvC_resolvase; cl00243 395494000567 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 395494000568 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395494000569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000570 dihydroorotase; Provisional; Region: PRK07627 395494000571 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 395494000572 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 395494000573 active site 395494000574 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 395494000575 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 395494000576 active site 395494000577 Zn binding site [ion binding]; other site 395494000578 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 395494000579 putative phosphate binding site [ion binding]; other site 395494000580 putative catalytic site [active] 395494000581 active site 395494000582 metal binding site A [ion binding]; metal-binding site 395494000583 DNA binding site [nucleotide binding] 395494000584 putative AP binding site [nucleotide binding]; other site 395494000585 putative metal binding site B [ion binding]; other site 395494000586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000587 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 395494000588 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 395494000589 proline aminopeptidase P II; Provisional; Region: PRK10879 395494000590 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 395494000591 active site 395494000592 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 395494000593 Substrate binding site; other site 395494000594 metal-binding site 395494000595 Phosphotransferase enzyme family; Region: APH; pfam01636 395494000596 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 395494000597 Organic solvent tolerance protein; Region: OstA_C; pfam04453 395494000598 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 395494000599 SurA N-terminal domain; Region: SurA_N_3; cl07813 395494000600 PPIC-type PPIASE domain; Region: Rotamase; cl08278 395494000601 PPIC-type PPIASE domain; Region: Rotamase; cl08278 395494000602 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 395494000603 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 395494000604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000605 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000606 Zn2+ binding site [ion binding]; other site 395494000607 Mg2+ binding site [ion binding]; other site 395494000608 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395494000609 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 395494000610 dimer interface [polypeptide binding]; other site 395494000611 active site 395494000612 metal binding site [ion binding]; metal-binding site 395494000613 glutathione binding site [chemical binding]; other site 395494000614 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 395494000615 substrate binding site [chemical binding]; other site 395494000616 dimer interface [polypeptide binding]; other site 395494000617 ATP binding site [chemical binding]; other site 395494000618 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 395494000619 thiamine phosphate binding site [chemical binding]; other site 395494000620 active site 395494000621 pyrophosphate binding site [ion binding]; other site 395494000622 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 395494000623 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 395494000624 inhibitor-cofactor binding pocket; inhibition site 395494000625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494000626 catalytic residue [active] 395494000627 Predicted GTPase [General function prediction only]; Region: COG0218 395494000628 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 395494000629 G1 box; other site 395494000630 GTP/Mg2+ binding site [chemical binding]; other site 395494000631 Switch I region; other site 395494000632 G2 box; other site 395494000633 G3 box; other site 395494000634 Switch II region; other site 395494000635 G4 box; other site 395494000636 G5 box; other site 395494000637 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 395494000638 dimer interface [polypeptide binding]; other site 395494000639 allosteric magnesium binding site [ion binding]; other site 395494000640 active site 395494000641 aspartate-rich active site metal binding site; other site 395494000642 Schiff base residues; other site 395494000643 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 395494000644 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 395494000645 Transglycosylase; Region: Transgly; cl07896 395494000646 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395494000647 Cell division protein FtsA; Region: FtsA; cl11496 395494000648 Competence protein A; Region: Competence_A; pfam11104 395494000649 Cell division protein FtsA; Region: FtsA; cl11496 395494000650 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 395494000651 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 395494000652 Pilus assembly protein, PilO; Region: PilO; cl01234 395494000653 Pilus assembly protein, PilP; Region: PilP; cl01235 395494000654 AMIN domain; Region: AMIN; pfam11741 395494000655 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 395494000656 Secretin and TonB N terminus short domain; Region: STN; cl06624 395494000657 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 395494000658 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395494000659 shikimate kinase; Reviewed; Region: aroK; PRK00131 395494000660 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 395494000661 ADP binding site [chemical binding]; other site 395494000662 magnesium binding site [ion binding]; other site 395494000663 putative shikimate binding site; other site 395494000664 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 395494000665 active site 395494000666 dimer interface [polypeptide binding]; other site 395494000667 metal binding site [ion binding]; metal-binding site 395494000668 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 395494000669 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000670 Zn2+ binding site [ion binding]; other site 395494000671 Mg2+ binding site [ion binding]; other site 395494000672 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 395494000673 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 395494000674 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 395494000675 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 395494000676 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 395494000677 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 395494000678 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 395494000679 Type II transport protein GspH; Region: GspH; pfam12019 395494000680 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 395494000681 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 395494000682 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 395494000683 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 395494000684 active site 395494000685 dimer interface [polypeptide binding]; other site 395494000686 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 395494000687 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 395494000688 active site 395494000689 FMN binding site [chemical binding]; other site 395494000690 substrate binding site [chemical binding]; other site 395494000691 3Fe-4S cluster binding site [ion binding]; other site 395494000692 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 395494000693 domain interface; other site 395494000694 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 395494000695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000696 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 395494000697 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 395494000698 substrate binding site [chemical binding]; other site 395494000699 active site 395494000700 primosome assembly protein PriA; Validated; Region: PRK05580 395494000701 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 395494000702 ATP binding site [chemical binding]; other site 395494000703 putative Mg++ binding site [ion binding]; other site 395494000704 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494000705 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395494000706 FAD binding domain; Region: FAD_binding_4; pfam01565 395494000707 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 395494000708 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 395494000709 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 395494000710 active site 395494000711 HIGH motif; other site 395494000712 KMSK motif region; other site 395494000713 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 395494000714 tRNA binding surface [nucleotide binding]; other site 395494000715 anticodon binding site; other site 395494000716 Sporulation related domain; Region: SPOR; cl10051 395494000717 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 395494000718 catalytic residues [active] 395494000719 hinge region; other site 395494000720 alpha helical domain; other site 395494000721 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 395494000722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000723 NAD(P) binding site [chemical binding]; other site 395494000724 active site 395494000725 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 395494000726 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 395494000727 Phosphotransferase enzyme family; Region: APH; pfam01636 395494000728 putative active site [active] 395494000729 putative substrate binding site [chemical binding]; other site 395494000730 ATP binding site [chemical binding]; other site 395494000731 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 395494000732 MEKHLA domain; Region: MEKHLA; pfam08670 395494000733 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 395494000734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494000735 Family description; Region: UvrD_C_2; cl15862 395494000736 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 395494000737 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 395494000738 Ligand Binding Site [chemical binding]; other site 395494000739 pteridine reductase; Provisional; Region: PRK09135 395494000740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000741 NAD(P) binding site [chemical binding]; other site 395494000742 active site 395494000743 Uncharacterized conserved protein [Function unknown]; Region: COG1565 395494000744 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 395494000745 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 395494000746 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; cl08302 395494000747 EF-hand domain pair; Region: EF_hand_5; pfam13499 395494000748 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 395494000749 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 395494000750 active site 395494000751 NTP binding site [chemical binding]; other site 395494000752 metal binding triad [ion binding]; metal-binding site 395494000753 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 395494000754 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395494000755 lytic murein transglycosylase; Provisional; Region: PRK11619 395494000756 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 catalyze...; Region: LT_GEWL; cd00254 395494000757 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395494000758 catalytic residue [active] 395494000759 Putative exonuclease, RdgC; Region: RdgC; cl01122 395494000760 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 395494000761 DNA polymerase I; Provisional; Region: PRK05755 395494000762 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 395494000763 active site 395494000764 metal binding site 1 [ion binding]; metal-binding site 395494000765 putative 5' ssDNA interaction site; other site 395494000766 metal binding site 3; metal-binding site 395494000767 metal binding site 2 [ion binding]; metal-binding site 395494000768 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 395494000769 putative DNA binding site [nucleotide binding]; other site 395494000770 putative metal binding site [ion binding]; other site 395494000771 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 395494000772 active site 395494000773 catalytic site [active] 395494000774 substrate binding site [chemical binding]; other site 395494000775 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 395494000776 active site 395494000777 DNA binding site [nucleotide binding] 395494000778 catalytic site [active] 395494000779 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395494000780 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 395494000781 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 395494000782 putative active site [active] 395494000783 GtrA-like protein; Region: GtrA; cl00971 395494000784 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395494000785 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl01922 395494000786 BNR repeat-like domain; Region: BNR_2; pfam13088 395494000787 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 395494000788 homooctamer interface [polypeptide binding]; other site 395494000789 active site 395494000790 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 395494000791 UGMP family protein; Validated; Region: PRK09604 395494000792 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 395494000793 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494000794 metal binding site [ion binding]; metal-binding site 395494000795 active site 395494000796 I-site; other site 395494000797 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 395494000798 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 395494000799 ATP binding site [chemical binding]; other site 395494000800 substrate interface [chemical binding]; other site 395494000801 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 395494000802 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 395494000803 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 395494000804 protein binding site [polypeptide binding]; other site 395494000805 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 395494000806 Catalytic dyad [active] 395494000807 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 395494000808 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 395494000809 Sulfatase; Region: Sulfatase; cl10460 395494000810 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 395494000811 dimerization interface [polypeptide binding]; other site 395494000812 putative DNA binding site [nucleotide binding]; other site 395494000813 putative Zn2+ binding site [ion binding]; other site 395494000814 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 395494000815 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494000816 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 395494000817 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 395494000818 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395494000819 Protein export membrane protein; Region: SecD_SecF; cl14618 395494000820 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 395494000821 O-Antigen ligase; Region: Wzy_C; cl04850 395494000822 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 395494000823 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 395494000824 active site residue [active] 395494000825 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 395494000826 GSH binding site [chemical binding]; other site 395494000827 catalytic residues [active] 395494000828 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 395494000829 SecA binding site; other site 395494000830 Preprotein binding site; other site 395494000831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 395494000832 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 395494000833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000834 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 395494000835 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395494000836 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 395494000837 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 395494000838 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 395494000839 Walker A motif; other site 395494000840 ATP binding site [chemical binding]; other site 395494000841 Walker B motif; other site 395494000842 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 395494000843 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395494000844 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395494000845 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 395494000846 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 395494000847 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 395494000848 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 395494000849 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 395494000850 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 395494000851 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 395494000852 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 395494000853 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 395494000854 Secretin and TonB N terminus short domain; Region: STN; cl06624 395494000855 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 395494000856 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395494000857 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 395494000858 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494000859 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 395494000860 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 395494000861 TPR motif; other site 395494000862 binding surface 395494000863 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000864 Zn2+ binding site [ion binding]; other site 395494000865 Mg2+ binding site [ion binding]; other site 395494000866 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494000867 Zn2+ binding site [ion binding]; other site 395494000868 Mg2+ binding site [ion binding]; other site 395494000869 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 395494000870 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395494000871 active site 395494000872 biotin synthase; Region: bioB; TIGR00433 395494000873 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 395494000874 FeS/SAM binding site; other site 395494000875 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 395494000876 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 395494000877 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 395494000878 substrate-cofactor binding pocket; other site 395494000879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494000880 catalytic residue [active] 395494000881 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395494000882 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 395494000883 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395494000884 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 395494000885 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 395494000886 S-adenosylmethionine binding site [chemical binding]; other site 395494000887 AAA domain; Region: AAA_26; pfam13500 395494000888 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494000889 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494000890 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395494000891 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 395494000892 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 395494000893 Cu(I) binding site [ion binding]; other site 395494000894 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395494000895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494000896 active site 395494000897 phosphorylation site [posttranslational modification] 395494000898 intermolecular recognition site; other site 395494000899 dimerization interface [polypeptide binding]; other site 395494000900 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 395494000901 DNA binding residues [nucleotide binding] 395494000902 dimerization interface [polypeptide binding]; other site 395494000903 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 395494000904 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494000905 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 395494000906 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 395494000907 KilA-N domain; Region: KilA-N; pfam04383 395494000908 recombination factor protein RarA; Reviewed; Region: PRK13342 395494000909 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 395494000910 Walker A motif; other site 395494000911 ATP binding site [chemical binding]; other site 395494000912 Walker B motif; other site 395494000913 arginine finger; other site 395494000914 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 395494000915 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395494000916 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 395494000917 S-adenosylmethionine binding site [chemical binding]; other site 395494000918 seryl-tRNA synthetase; Provisional; Region: PRK05431 395494000919 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 395494000920 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 bound...; Region: SerRS_core; cd00770 395494000921 dimer interface [polypeptide binding]; other site 395494000922 active site 395494000923 motif 1; other site 395494000924 motif 2; other site 395494000925 motif 3; other site 395494000926 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 395494000927 substrate binding pocket [chemical binding]; other site 395494000928 membrane-bound complex binding site; other site 395494000929 hinge residues; other site 395494000930 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 catalyze...; Region: LT_GEWL; cd00254 395494000931 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395494000932 catalytic residue [active] 395494000933 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 395494000934 Low-spin heme binding site [chemical binding]; other site 395494000935 Putative water exit pathway; other site 395494000936 Binuclear center (active site) [active] 395494000937 Putative proton exit pathway; other site 395494000938 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 395494000939 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 395494000940 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 395494000941 Cytochrome c; Region: Cytochrom_C; cl11414 395494000942 Cytochrome c; Region: Cytochrom_C; cl11414 395494000943 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 395494000944 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 395494000945 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 395494000946 FixH; Region: FixH; cl01254 395494000947 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 395494000948 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395494000949 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 395494000950 metal-binding site [ion binding] 395494000951 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494000952 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494000953 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 395494000954 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 395494000955 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 395494000956 ligand binding site [chemical binding]; other site 395494000957 flexible hinge region; other site 395494000958 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 395494000959 putative switch regulator; other site 395494000960 non-specific DNA interactions [nucleotide binding]; other site 395494000961 DNA binding site [nucleotide binding] 395494000962 sequence specific DNA binding site [nucleotide binding]; other site 395494000963 putative cAMP binding site [chemical binding]; other site 395494000964 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 395494000965 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 395494000966 FeS/SAM binding site; other site 395494000967 HemN C-terminal domain; Region: HemN_C; pfam06969 395494000968 adenine DNA glycosylase; Provisional; Region: PRK10880 395494000969 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395494000970 minor groove reading motif; other site 395494000971 helix-hairpin-helix signature motif; other site 395494000972 substrate binding pocket [chemical binding]; other site 395494000973 active site 395494000974 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 395494000975 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 395494000976 DNA binding and oxoG recognition site [nucleotide binding] 395494000977 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 395494000978 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 395494000979 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494000980 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 395494000981 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 395494000982 putative active site [active] 395494000983 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 395494000984 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494000985 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 395494000986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 395494000987 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 395494000988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 395494000989 OstA-like protein; Region: OstA; cl00844 395494000990 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 395494000991 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 395494000992 Walker A/P-loop; other site 395494000993 ATP binding site [chemical binding]; other site 395494000994 Q-loop/lid; other site 395494000995 ABC transporter signature motif; other site 395494000996 Walker B; other site 395494000997 D-loop; other site 395494000998 H-loop/switch region; other site 395494000999 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 395494001000 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 395494001001 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 395494001002 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 A site; Region: RaiA; cd00552 395494001003 30S subunit binding site; other site 395494001004 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 395494001005 active site 395494001006 phosphorylation site [posttranslational modification] 395494001007 HPr kinase/phosphorylase; Provisional; Region: PRK05428 395494001008 DRTGG domain; Region: DRTGG; cl12147 395494001009 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 395494001010 Hpr binding site; other site 395494001011 active site 395494001012 homohexamer subunit interaction site [polypeptide binding]; other site 395494001013 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 395494001014 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 395494001015 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 395494001016 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 395494001017 aromatic acid decarboxylase; Validated; Region: PRK05920 395494001018 Flavoprotein; Region: Flavoprotein; cl08021 395494001019 hypothetical protein; Provisional; Region: PRK08999 395494001020 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 395494001021 active site 395494001022 8-oxo-dGMP binding site [chemical binding]; other site 395494001023 nudix motif; other site 395494001024 metal binding site [ion binding]; metal-binding site 395494001025 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 395494001026 thiamine phosphate binding site [chemical binding]; other site 395494001027 active site 395494001028 pyrophosphate binding site [ion binding]; other site 395494001029 Domain of unknown function (DUF329); Region: DUF329; cl01144 395494001030 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 395494001031 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 395494001032 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 395494001033 CoA-binding site [chemical binding]; other site 395494001034 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 395494001035 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 395494001036 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 395494001037 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 395494001038 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395494001039 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395494001040 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 395494001041 Domain of unknown function DUF21; Region: DUF21; pfam01595 395494001042 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 395494001043 Transporter associated domain; Region: CorC_HlyC; cl08393 395494001044 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 395494001045 Dehydratase family; Region: ILVD_EDD; cl00340 395494001046 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 395494001047 active site 395494001048 phosphate binding residues; other site 395494001049 catalytic residues [active] 395494001050 Cytochrome c; Region: Cytochrom_C; cl11414 395494001051 Cytochrome c; Region: Cytochrom_C; cl11414 395494001052 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395494001053 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 395494001054 dimerization interface [polypeptide binding]; other site 395494001055 ligand binding site [chemical binding]; other site 395494001056 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 395494001057 TM-ABC transporter signature motif; other site 395494001058 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 395494001059 TM-ABC transporter signature motif; other site 395494001060 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395494001061 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 395494001062 Walker A/P-loop; other site 395494001063 ATP binding site [chemical binding]; other site 395494001064 Q-loop/lid; other site 395494001065 ABC transporter signature motif; other site 395494001066 Walker B; other site 395494001067 D-loop; other site 395494001068 H-loop/switch region; other site 395494001069 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395494001070 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 395494001071 Walker A/P-loop; other site 395494001072 ATP binding site [chemical binding]; other site 395494001073 Q-loop/lid; other site 395494001074 ABC transporter signature motif; other site 395494001075 Walker B; other site 395494001076 D-loop; other site 395494001077 H-loop/switch region; other site 395494001078 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395494001079 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 395494001080 synthetase active site [active] 395494001081 NTP binding site [chemical binding]; other site 395494001082 metal binding site [ion binding]; metal-binding site 395494001083 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 395494001084 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 395494001085 EVE domain; Region: EVE; cl00728 395494001086 Protein of unknown function (DUF445); Region: DUF445; pfam04286 395494001087 Cell division protein ZapA; Region: ZapA; cl01146 395494001088 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 395494001089 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 395494001090 N-terminal plug; other site 395494001091 ligand-binding site [chemical binding]; other site 395494001092 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 395494001093 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494001094 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 395494001095 homodimer interface [polypeptide binding]; other site 395494001096 Walker A motif; other site 395494001097 ATP binding site [chemical binding]; other site 395494001098 hydroxycobalamin binding site [chemical binding]; other site 395494001099 Walker B motif; other site 395494001100 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 395494001101 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395494001102 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 395494001103 Walker A/P-loop; other site 395494001104 ATP binding site [chemical binding]; other site 395494001105 Q-loop/lid; other site 395494001106 ABC transporter signature motif; other site 395494001107 Walker B; other site 395494001108 D-loop; other site 395494001109 H-loop/switch region; other site 395494001110 peroxidase; Provisional; Region: PRK15000 395494001111 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 395494001112 dimer interface [polypeptide binding]; other site 395494001113 decamer (pentamer of dimers) interface [polypeptide binding]; other site 395494001114 catalytic triad [active] 395494001115 peroxidatic and resolving cysteines [active] 395494001116 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 395494001117 active site residue [active] 395494001118 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 395494001119 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494001120 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395494001121 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 395494001122 active site residue [active] 395494001123 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 395494001124 CPxP motif; other site 395494001125 DsrE/DsrF-like family; Region: DrsE; cl00672 395494001126 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395494001127 Helix-turn-helix domains; Region: HTH; cl00088 395494001128 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494001129 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494001130 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494001131 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 395494001132 MraZ protein; Region: MraZ; pfam02381 395494001133 MraZ protein; Region: MraZ; pfam02381 395494001134 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 395494001135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494001136 Septum formation initiator; Region: DivIC; cl11433 395494001137 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 395494001138 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 395494001139 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395494001140 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 395494001141 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395494001142 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494001143 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395494001144 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395494001145 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 395494001146 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494001147 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 395494001148 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 395494001149 Mg++ binding site [ion binding]; other site 395494001150 putative catalytic motif [active] 395494001151 putative substrate binding site [chemical binding]; other site 395494001152 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 395494001153 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494001154 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 395494001155 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 395494001156 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 395494001157 active site 395494001158 homodimer interface [polypeptide binding]; other site 395494001159 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 395494001160 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395494001161 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494001162 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395494001163 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 395494001164 FAD binding domain; Region: FAD_binding_4; pfam01565 395494001165 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 395494001166 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 395494001167 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 395494001168 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395494001169 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 395494001170 Cell division protein FtsQ; Region: FtsQ; pfam03799 395494001171 cell division protein FtsA; Region: ftsA; TIGR01174 395494001172 Cell division protein FtsA; Region: FtsA; cl11496 395494001173 Cell division protein FtsA; Region: FtsA; cl11496 395494001174 cell division protein FtsZ; Validated; Region: PRK09330 395494001175 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 395494001176 nucleotide binding site [chemical binding]; other site 395494001177 SulA interaction site; other site 395494001178 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 395494001179 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 395494001180 Protein of unknown function (DUF721); Region: DUF721; cl02324 395494001181 Peptidase family M23; Region: Peptidase_M23; pfam01551 395494001182 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 395494001183 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494001184 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 395494001185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 395494001186 SEC-C motif; Region: SEC-C; pfam02810 395494001187 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 395494001188 ligand binding site [chemical binding]; other site 395494001189 flexible hinge region; other site 395494001190 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 395494001191 heterotetramer interface [polypeptide binding]; other site 395494001192 active site pocket [active] 395494001193 cleavage site 395494001194 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 395494001195 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 395494001196 Walker A motif; other site 395494001197 ATP binding site [chemical binding]; other site 395494001198 Walker B motif; other site 395494001199 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 395494001200 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 395494001201 active site 395494001202 catalytic residues [active] 395494001203 metal binding site [ion binding]; metal-binding site 395494001204 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 395494001205 OsmC-like protein; Region: OsmC; cl00767 395494001206 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 395494001207 putative active site [active] 395494001208 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 395494001209 23S rRNA interface [nucleotide binding]; other site 395494001210 L3 interface [polypeptide binding]; other site 395494001211 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 395494001212 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 395494001213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494001214 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 395494001215 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 395494001216 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 395494001217 SlyX; Region: SlyX; cl01090 395494001218 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 395494001219 putative peptidase; Provisional; Region: PRK11649 395494001220 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 395494001221 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 395494001222 active site 395494001223 HIGH motif; other site 395494001224 dimer interface [polypeptide binding]; other site 395494001225 KMSKS motif; other site 395494001226 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 395494001227 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 395494001228 GatB domain; Region: GatB_Yqey; cl11497 395494001229 DNA primase; Validated; Region: dnaG; PRK05667 395494001230 CHC2 zinc finger; Region: zf-CHC2; cl15369 395494001231 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 395494001232 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 395494001233 active site 395494001234 metal binding site [ion binding]; metal-binding site 395494001235 interdomain interaction site; other site 395494001236 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 395494001237 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 395494001238 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 395494001239 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 395494001240 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 395494001241 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 395494001242 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 395494001243 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395494001244 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 395494001245 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 395494001246 DNA binding residues [nucleotide binding] 395494001247 metabolite-proton symporter; Region: 2A0106; TIGR00883 395494001248 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 395494001249 putative substrate translocation pore; other site 395494001250 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 395494001251 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 395494001252 substrate binding pocket [chemical binding]; other site 395494001253 chain length determination region; other site 395494001254 substrate-Mg2+ binding site; other site 395494001255 catalytic residues [active] 395494001256 aspartate-rich region 1; other site 395494001257 active site lid residues [active] 395494001258 aspartate-rich region 2; other site 395494001259 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494001260 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 395494001261 dimer interface [polypeptide binding]; other site 395494001262 phosphorylation site [posttranslational modification] 395494001263 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 395494001264 ATP binding site [chemical binding]; other site 395494001265 Mg2+ binding site [ion binding]; other site 395494001266 G-X-G motif; other site 395494001267 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395494001268 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001269 active site 395494001270 phosphorylation site [posttranslational modification] 395494001271 intermolecular recognition site; other site 395494001272 dimerization interface [polypeptide binding]; other site 395494001273 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 395494001274 Walker A motif; other site 395494001275 ATP binding site [chemical binding]; other site 395494001276 Walker B motif; other site 395494001277 arginine finger; other site 395494001278 Helix-turn-helix domains; Region: HTH; cl00088 395494001279 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 395494001280 amidase catalytic site [active] 395494001281 Zn binding residues [ion binding]; other site 395494001282 substrate binding site [chemical binding]; other site 395494001283 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 395494001284 ATP cone domain; Region: ATP-cone; pfam03477 395494001285 ATP cone domain; Region: ATP-cone; pfam03477 395494001286 Class I ribonucleotide reductase; Region: RNR_I; cd01679 395494001287 active site 395494001288 dimer interface [polypeptide binding]; other site 395494001289 catalytic residues [active] 395494001290 effector binding site; other site 395494001291 R2 peptide binding site; other site 395494001292 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 395494001293 dimer interface [polypeptide binding]; other site 395494001294 putative radical transfer pathway; other site 395494001295 diiron center [ion binding]; other site 395494001296 tyrosyl radical; other site 395494001297 TIR domain; Region: TIR_2; cl15770 395494001298 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 395494001299 dimerization interface [polypeptide binding]; other site 395494001300 putative DNA binding site [nucleotide binding]; other site 395494001301 putative Zn2+ binding site [ion binding]; other site 395494001302 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 395494001303 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494001304 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494001305 HsdM N-terminal domain; Region: HsdM_N; pfam12161 395494001306 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 395494001307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494001308 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 395494001309 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 395494001310 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 395494001311 ATP binding site [chemical binding]; other site 395494001312 putative Mg++ binding site [ion binding]; other site 395494001313 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 395494001314 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494001315 GAF domain; Region: GAF; cl15785 395494001316 PAS fold; Region: PAS_3; pfam08447 395494001317 PAS fold; Region: PAS_3; pfam08447 395494001318 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 395494001319 putative active site [active] 395494001320 heme pocket [chemical binding]; other site 395494001321 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 395494001322 dimer interface [polypeptide binding]; other site 395494001323 phosphorylation site [posttranslational modification] 395494001324 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 395494001325 ATP binding site [chemical binding]; other site 395494001326 Mg2+ binding site [ion binding]; other site 395494001327 G-X-G motif; other site 395494001328 Response regulator receiver domain; Region: Response_reg; pfam00072 395494001329 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001330 active site 395494001331 phosphorylation site [posttranslational modification] 395494001332 intermolecular recognition site; other site 395494001333 dimerization interface [polypeptide binding]; other site 395494001334 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 395494001335 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 395494001336 active site 395494001337 nucleophile elbow; other site 395494001338 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 395494001339 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 395494001340 chorismate binding enzyme; Region: Chorismate_bind; cl10555 395494001341 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 395494001342 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 395494001343 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395494001344 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 395494001345 synthetase active site [active] 395494001346 NTP binding site [chemical binding]; other site 395494001347 metal binding site [ion binding]; metal-binding site 395494001348 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 395494001349 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 395494001350 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 395494001351 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 395494001352 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 395494001353 catalytic site [active] 395494001354 G-X2-G-X-G-K; other site 395494001355 hypothetical protein; Provisional; Region: PRK11820 395494001356 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 395494001357 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 395494001358 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 395494001359 active site 395494001360 ribonuclease PH; Reviewed; Region: rph; PRK00173 395494001361 Ribonuclease PH; Region: RNase_PH_bact; cd11362 395494001362 hexamer interface [polypeptide binding]; other site 395494001363 active site 395494001364 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 395494001365 active site 395494001366 dimerization interface [polypeptide binding]; other site 395494001367 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 395494001368 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 395494001369 FeS/SAM binding site; other site 395494001370 HemN C-terminal domain; Region: HemN_C; pfam06969 395494001371 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; cl15754 395494001372 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 395494001373 ThiS interaction site; other site 395494001374 putative active site [active] 395494001375 tetramer interface [polypeptide binding]; other site 395494001376 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 395494001377 thiS-thiF/thiG interaction site; other site 395494001378 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395494001379 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 395494001380 putative substrate translocation pore; other site 395494001381 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 395494001382 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 395494001383 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 395494001384 generic binding surface I; other site 395494001385 generic binding surface II; other site 395494001386 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395494001387 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395494001388 Walker A/P-loop; other site 395494001389 ATP binding site [chemical binding]; other site 395494001390 Q-loop/lid; other site 395494001391 ABC transporter signature motif; other site 395494001392 Walker B; other site 395494001393 D-loop; other site 395494001394 H-loop/switch region; other site 395494001395 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395494001396 FtsX-like permease family; Region: FtsX; cl15850 395494001397 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 395494001398 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 395494001399 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 395494001400 Dihaem cytochrome c; Region: DHC; pfam09626 395494001401 Domain of unknown function DUF59; Region: DUF59; cl00941 395494001402 antiporter inner membrane protein; Provisional; Region: PRK11670 395494001403 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 395494001404 Walker A motif; other site 395494001405 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 395494001406 trimer interface [polypeptide binding]; other site 395494001407 active site 395494001408 putative global regulator; Reviewed; Region: PRK09559 395494001409 arginine decarboxylase; Provisional; Region: PRK15029 395494001410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 395494001411 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 395494001412 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395494001413 catalytic residue [active] 395494001414 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 395494001415 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 protein; Region: CSP_CDS; cd04458 395494001416 DNA-binding site [nucleotide binding]; DNA binding site 395494001417 RNA-binding motif; other site 395494001418 Flagellin N-methylase; Region: FliB; cl00497 395494001419 Peptidase family U32; Region: Peptidase_U32; cl03113 395494001420 Collagenase; Region: DUF3656; pfam12392 395494001421 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 395494001422 folate binding site [chemical binding]; other site 395494001423 NADP+ binding site [chemical binding]; other site 395494001424 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 395494001425 dimerization interface [polypeptide binding]; other site 395494001426 active site 395494001427 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 395494001428 interface (dimer of trimers) [polypeptide binding]; other site 395494001429 Substrate-binding/catalytic site; other site 395494001430 Zn-binding sites [ion binding]; other site 395494001431 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 395494001432 SEC-C motif; Region: SEC-C; pfam02810 395494001433 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 395494001434 TPR motif; other site 395494001435 TPR repeat; Region: TPR_11; pfam13414 395494001436 binding surface 395494001437 TPR repeat; Region: TPR_11; pfam13414 395494001438 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 395494001439 binding surface 395494001440 TPR motif; other site 395494001441 TPR repeat; Region: TPR_11; pfam13414 395494001442 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 395494001443 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 395494001444 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 395494001445 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 395494001446 E3 interaction surface; other site 395494001447 lipoyl attachment site [posttranslational modification]; other site 395494001448 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 395494001449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494001450 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494001451 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395494001452 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 395494001453 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 395494001454 putative catalytic cysteine [active] 395494001455 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 395494001456 active site 395494001457 ribulose/triose binding site [chemical binding]; other site 395494001458 phosphate binding site [ion binding]; other site 395494001459 substrate (anthranilate) binding pocket [chemical binding]; other site 395494001460 product (indole) binding pocket [chemical binding]; other site 395494001461 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 395494001462 trimer interface [polypeptide binding]; other site 395494001463 eyelet of channel; other site 395494001464 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 395494001465 diiron binding motif [ion binding]; other site 395494001466 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 395494001467 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 395494001468 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 395494001469 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494001470 homodimer interface [polypeptide binding]; other site 395494001471 catalytic residue [active] 395494001472 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 395494001473 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 395494001474 putative active site pocket [active] 395494001475 4-fold oligomerization interface [polypeptide binding]; other site 395494001476 metal binding residues [ion binding]; metal-binding site 395494001477 3-fold/trimer interface [polypeptide binding]; other site 395494001478 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 395494001479 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 395494001480 putative active site [active] 395494001481 oxyanion strand; other site 395494001482 catalytic triad [active] 395494001483 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 395494001484 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 395494001485 catalytic residues [active] 395494001486 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 395494001487 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 395494001488 substrate binding site [chemical binding]; other site 395494001489 glutamase interaction surface [polypeptide binding]; other site 395494001490 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 395494001491 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 395494001492 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 395494001493 nucleotide binding site/active site [active] 395494001494 HIT family signature motif; other site 395494001495 catalytic residue [active] 395494001496 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 395494001497 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 395494001498 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 395494001499 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 395494001500 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395494001501 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 395494001502 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395494001503 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 395494001504 protein binding site [polypeptide binding]; other site 395494001505 Uncharacterized conserved protein [Function unknown]; Region: COG0327 395494001506 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 395494001507 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 395494001508 heme-binding residues [chemical binding]; other site 395494001509 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 395494001510 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 395494001511 molybdopterin cofactor binding site; other site 395494001512 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 395494001513 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 395494001514 Polysulphide reductase, NrfD; Region: NrfD; cl01295 395494001515 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 395494001516 Cytochrome c; Region: Cytochrom_C; cl11414 395494001517 stringent starvation protein A; Provisional; Region: sspA; PRK09481 395494001518 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 395494001519 C-terminal domain interface [polypeptide binding]; other site 395494001520 putative GSH binding site (G-site) [chemical binding]; other site 395494001521 dimer interface [polypeptide binding]; other site 395494001522 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 395494001523 dimer interface [polypeptide binding]; other site 395494001524 N-terminal domain interface [polypeptide binding]; other site 395494001525 Stringent starvation protein B; Region: SspB; cl01120 395494001526 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 395494001527 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395494001528 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 395494001529 DNA binding residues [nucleotide binding] 395494001530 FtsX-like permease family; Region: FtsX; cl15850 395494001531 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 395494001532 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 395494001533 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494001534 Walker A/P-loop; other site 395494001535 ATP binding site [chemical binding]; other site 395494001536 Q-loop/lid; other site 395494001537 ABC transporter signature motif; other site 395494001538 Walker B; other site 395494001539 D-loop; other site 395494001540 H-loop/switch region; other site 395494001541 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 395494001542 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 395494001543 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494001544 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 395494001545 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 395494001546 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 395494001547 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 395494001548 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 395494001549 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 395494001550 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 395494001551 S-adenosylmethionine binding site [chemical binding]; other site 395494001552 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 395494001553 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 395494001554 active site 395494001555 (T/H)XGH motif; other site 395494001556 ferredoxin; Validated; Region: PRK07118 395494001557 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 395494001558 Phosphoesterase family; Region: Phosphoesterase; cl15450 395494001559 GAF domain; Region: GAF; cl15785 395494001560 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494001561 Zn2+ binding site [ion binding]; other site 395494001562 Mg2+ binding site [ion binding]; other site 395494001563 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 395494001564 octamerization interface [polypeptide binding]; other site 395494001565 diferric-oxygen binding site [ion binding]; other site 395494001566 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 395494001567 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 395494001568 DNA binding site [nucleotide binding] 395494001569 catalytic residue [active] 395494001570 H2TH interface [polypeptide binding]; other site 395494001571 putative catalytic residues [active] 395494001572 turnover-facilitating residue; other site 395494001573 intercalation triad [nucleotide binding]; other site 395494001574 8OG recognition residue [nucleotide binding]; other site 395494001575 putative reading head residues; other site 395494001576 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 395494001577 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 395494001578 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 395494001579 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 395494001580 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494001581 Walker A/P-loop; other site 395494001582 ATP binding site [chemical binding]; other site 395494001583 Q-loop/lid; other site 395494001584 ABC transporter signature motif; other site 395494001585 Walker B; other site 395494001586 D-loop; other site 395494001587 H-loop/switch region; other site 395494001588 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 395494001589 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 395494001590 binding surface 395494001591 TPR motif; other site 395494001592 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 395494001593 binding surface 395494001594 TPR motif; other site 395494001595 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 395494001596 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 395494001597 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 395494001598 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 395494001599 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 395494001600 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 395494001601 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 395494001602 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395494001603 active site 395494001604 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 395494001605 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 395494001606 5S rRNA interface [nucleotide binding]; other site 395494001607 CTC domain interface [polypeptide binding]; other site 395494001608 L16 interface [polypeptide binding]; other site 395494001609 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 395494001610 putative active site [active] 395494001611 catalytic residue [active] 395494001612 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 395494001613 active site 395494001614 catalytic triad [active] 395494001615 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 395494001616 catalytic triad [active] 395494001617 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 395494001618 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 395494001619 binding surface 395494001620 TPR motif; other site 395494001621 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 395494001622 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 395494001623 TPR motif; other site 395494001624 binding surface 395494001625 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 395494001626 binding surface 395494001627 TPR motif; other site 395494001628 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 395494001629 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 395494001630 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 395494001631 active site 395494001632 catalytic triad [active] 395494001633 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 395494001634 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 395494001635 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 395494001636 putative substrate translocation pore; other site 395494001637 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 395494001638 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 395494001639 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 395494001640 substrate binding site [chemical binding]; other site 395494001641 ligand binding site [chemical binding]; other site 395494001642 Entericidin EcnA/B family; Region: Entericidin; cl02322 395494001643 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 395494001644 substrate binding site [chemical binding]; other site 395494001645 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 395494001646 tartrate dehydrogenase; Provisional; Region: PRK08194 395494001647 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 395494001648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494001649 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 395494001650 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 395494001651 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 395494001652 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 395494001653 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 395494001654 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 395494001655 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 395494001656 dimerization interface 3.5A [polypeptide binding]; other site 395494001657 active site 395494001658 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 monomeric; Region: PRAI; cd00405 395494001659 active site 395494001660 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 395494001661 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 395494001662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494001663 catalytic residue [active] 395494001664 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 395494001665 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 395494001666 substrate binding site [chemical binding]; other site 395494001667 active site 395494001668 catalytic residues [active] 395494001669 heterodimer interface [polypeptide binding]; other site 395494001670 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 395494001671 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395494001672 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 395494001673 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494001674 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395494001675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 395494001676 Sporulation related domain; Region: SPOR; cl10051 395494001677 Colicin V production protein; Region: Colicin_V; cl00567 395494001678 amidophosphoribosyltransferase; Provisional; Region: PRK09246 395494001679 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 395494001680 active site 395494001681 tetramer interface [polypeptide binding]; other site 395494001682 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395494001683 active site 395494001684 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 395494001685 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 395494001686 homodimer interface [polypeptide binding]; other site 395494001687 substrate-cofactor binding pocket; other site 395494001688 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494001689 catalytic residue [active] 395494001690 Competence-damaged protein; Region: CinA; cl00666 395494001691 recombinase A; Provisional; Region: recA; PRK09354 395494001692 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 395494001693 hexamer interface [polypeptide binding]; other site 395494001694 Walker A motif; other site 395494001695 ATP binding site [chemical binding]; other site 395494001696 Walker B motif; other site 395494001697 RecX family; Region: RecX; cl00936 395494001698 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 395494001699 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 formation of...; Region: AlaRS_core; cd00673 395494001700 motif 1; other site 395494001701 active site 395494001702 motif 2; other site 395494001703 motif 3; other site 395494001704 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 395494001705 DHHA1 domain; Region: DHHA1; pfam02272 395494001706 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 395494001707 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 395494001708 active site 395494001709 substrate binding site [chemical binding]; other site 395494001710 metal binding site [ion binding]; metal-binding site 395494001711 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494001712 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001713 active site 395494001714 phosphorylation site [posttranslational modification] 395494001715 intermolecular recognition site; other site 395494001716 dimerization interface [polypeptide binding]; other site 395494001717 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 395494001718 PAS fold; Region: PAS_3; pfam08447 395494001719 putative active site [active] 395494001720 heme pocket [chemical binding]; other site 395494001721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494001722 metal binding site [ion binding]; metal-binding site 395494001723 active site 395494001724 I-site; other site 395494001725 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395494001726 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 395494001727 putative active site [active] 395494001728 Zinc-finger domain; Region: zf-CHCC; cl01821 395494001729 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 395494001730 homodimer interface [polypeptide binding]; other site 395494001731 substrate-cofactor binding pocket; other site 395494001732 catalytic residue [active] 395494001733 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 395494001734 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 395494001735 DNA binding residues [nucleotide binding] 395494001736 dimerization interface [polypeptide binding]; other site 395494001737 Response regulator receiver domain; Region: Response_reg; pfam00072 395494001738 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001739 active site 395494001740 phosphorylation site [posttranslational modification] 395494001741 intermolecular recognition site; other site 395494001742 dimerization interface [polypeptide binding]; other site 395494001743 Response regulator receiver domain; Region: Response_reg; pfam00072 395494001744 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001745 active site 395494001746 phosphorylation site [posttranslational modification] 395494001747 intermolecular recognition site; other site 395494001748 dimerization interface [polypeptide binding]; other site 395494001749 Response regulator receiver domain; Region: Response_reg; pfam00072 395494001750 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001751 active site 395494001752 phosphorylation site [posttranslational modification] 395494001753 intermolecular recognition site; other site 395494001754 dimerization interface [polypeptide binding]; other site 395494001755 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 395494001756 Response regulator receiver domain; Region: Response_reg; pfam00072 395494001757 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494001758 active site 395494001759 phosphorylation site [posttranslational modification] 395494001760 intermolecular recognition site; other site 395494001761 dimerization interface [polypeptide binding]; other site 395494001762 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; cl15754 395494001763 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 395494001764 putative substrate binding site [chemical binding]; other site 395494001765 putative ATP binding site [chemical binding]; other site 395494001766 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 395494001767 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 395494001768 dimerization interface [polypeptide binding]; other site 395494001769 ATP binding site [chemical binding]; other site 395494001770 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 395494001771 dimerization interface [polypeptide binding]; other site 395494001772 ATP binding site [chemical binding]; other site 395494001773 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 395494001774 putative active site [active] 395494001775 catalytic triad [active] 395494001776 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 395494001777 active site 395494001778 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 395494001779 Tetramer interface [polypeptide binding]; other site 395494001780 active site 395494001781 FMN-binding site [chemical binding]; other site 395494001782 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395494001783 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 395494001784 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 395494001785 Peptidase family M48; Region: Peptidase_M48; cl12018 395494001786 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 395494001787 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395494001788 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 395494001789 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 395494001790 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 395494001791 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 395494001792 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 395494001793 Walker A/P-loop; other site 395494001794 ATP binding site [chemical binding]; other site 395494001795 Q-loop/lid; other site 395494001796 ABC transporter signature motif; other site 395494001797 Walker B; other site 395494001798 D-loop; other site 395494001799 H-loop/switch region; other site 395494001800 Permease; Region: Permease; cl00510 395494001801 mce related protein; Region: MCE; pfam02470 395494001802 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 395494001803 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 395494001804 anti sigma factor interaction site; other site 395494001805 regulatory phosphorylation site [posttranslational modification]; other site 395494001806 BolA-like protein; Region: BolA; cl00386 395494001807 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 395494001808 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 395494001809 hinge; other site 395494001810 active site 395494001811 ATP phosphoribosyltransferase; Region: HisG; cl15266 395494001812 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 395494001813 histidinol dehydrogenase; Region: hisD; TIGR00069 395494001814 NAD binding site [chemical binding]; other site 395494001815 dimerization interface [polypeptide binding]; other site 395494001816 product binding site; other site 395494001817 substrate binding site [chemical binding]; other site 395494001818 zinc binding site [ion binding]; other site 395494001819 catalytic residues [active] 395494001820 elongation factor Tu; Reviewed; Region: PRK00049 395494001821 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 395494001822 G1 box; other site 395494001823 GEF interaction site [polypeptide binding]; other site 395494001824 GTP/Mg2+ binding site [chemical binding]; other site 395494001825 Switch I region; other site 395494001826 G2 box; other site 395494001827 G3 box; other site 395494001828 Switch II region; other site 395494001829 G4 box; other site 395494001830 G5 box; other site 395494001831 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 395494001832 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 395494001833 Antibiotic Binding Site [chemical binding]; other site 395494001834 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 395494001835 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 395494001836 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 395494001837 putative homodimer interface [polypeptide binding]; other site 395494001838 KOW motif; Region: KOW; cl00354 395494001839 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 395494001840 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 395494001841 23S rRNA interface [nucleotide binding]; other site 395494001842 L7/L12 interface [polypeptide binding]; other site 395494001843 putative thiostrepton binding site; other site 395494001844 L25 interface [polypeptide binding]; other site 395494001845 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 395494001846 mRNA/rRNA interface [nucleotide binding]; other site 395494001847 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 395494001848 23S rRNA interface [nucleotide binding]; other site 395494001849 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 395494001850 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 395494001851 core dimer interface [polypeptide binding]; other site 395494001852 peripheral dimer interface [polypeptide binding]; other site 395494001853 L10 interface [polypeptide binding]; other site 395494001854 L11 interface [polypeptide binding]; other site 395494001855 putative EF-Tu interaction site [polypeptide binding]; other site 395494001856 putative EF-G interaction site [polypeptide binding]; other site 395494001857 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; cl04593 395494001858 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 395494001859 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 395494001860 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 395494001861 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; cl04593 395494001862 RPB11 interaction site [polypeptide binding]; other site 395494001863 RPB12 interaction site [polypeptide binding]; other site 395494001864 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 395494001865 RPB3 interaction site [polypeptide binding]; other site 395494001866 RPB1 interaction site [polypeptide binding]; other site 395494001867 RPB11 interaction site [polypeptide binding]; other site 395494001868 RPB10 interaction site [polypeptide binding]; other site 395494001869 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 395494001870 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 395494001871 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 395494001872 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 395494001873 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 395494001874 metal binding site [ion binding]; metal-binding site 395494001875 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 395494001876 DNA-directed RNA polymerase subunit A''; Validated; Region: PRK04309 395494001877 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 395494001878 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 395494001879 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 395494001880 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 395494001881 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 395494001882 DNA binding site [nucleotide binding] 395494001883 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 395494001884 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 395494001885 S17 interaction site [polypeptide binding]; other site 395494001886 S8 interaction site; other site 395494001887 16S rRNA interaction site [nucleotide binding]; other site 395494001888 streptomycin interaction site [chemical binding]; other site 395494001889 23S rRNA interaction site [nucleotide binding]; other site 395494001890 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 395494001891 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 395494001892 elongation factor G; Reviewed; Region: PRK00007 395494001893 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 395494001894 G1 box; other site 395494001895 putative GEF interaction site [polypeptide binding]; other site 395494001896 GTP/Mg2+ binding site [chemical binding]; other site 395494001897 Switch I region; other site 395494001898 G2 box; other site 395494001899 G3 box; other site 395494001900 Switch II region; other site 395494001901 G4 box; other site 395494001902 G5 box; other site 395494001903 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 395494001904 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 395494001905 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 395494001906 elongation factor Tu; Reviewed; Region: PRK00049 395494001907 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 395494001908 G1 box; other site 395494001909 GEF interaction site [polypeptide binding]; other site 395494001910 GTP/Mg2+ binding site [chemical binding]; other site 395494001911 Switch I region; other site 395494001912 G2 box; other site 395494001913 G3 box; other site 395494001914 Switch II region; other site 395494001915 G4 box; other site 395494001916 G5 box; other site 395494001917 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 395494001918 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 395494001919 Antibiotic Binding Site [chemical binding]; other site 395494001920 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 395494001921 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 395494001922 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 395494001923 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 395494001924 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 395494001925 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 395494001926 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 395494001927 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 395494001928 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 395494001929 putative translocon binding site; other site 395494001930 protein-rRNA interface [nucleotide binding]; other site 395494001931 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 395494001932 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 395494001933 G-X-X-G motif; other site 395494001934 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 395494001935 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 395494001936 23S rRNA interface [nucleotide binding]; other site 395494001937 5S rRNA interface [nucleotide binding]; other site 395494001938 putative antibiotic binding site [chemical binding]; other site 395494001939 L25 interface [polypeptide binding]; other site 395494001940 L27 interface [polypeptide binding]; other site 395494001941 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 395494001942 putative translocon interaction site; other site 395494001943 signal recognition particle (SRP54) interaction site; other site 395494001944 L23 interface [polypeptide binding]; other site 395494001945 trigger factor interaction site; other site 395494001946 23S rRNA interface [nucleotide binding]; other site 395494001947 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 395494001948 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 395494001949 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 395494001950 KOW motif; Region: KOW; cl00354 395494001951 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 395494001952 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 395494001953 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 395494001954 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 395494001955 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 395494001956 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 395494001957 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 395494001958 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 395494001959 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 395494001960 5S rRNA interface [nucleotide binding]; other site 395494001961 23S rRNA interface [nucleotide binding]; other site 395494001962 L5 interface [polypeptide binding]; other site 395494001963 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 395494001964 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 395494001965 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 395494001966 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 395494001967 23S rRNA binding site [nucleotide binding]; other site 395494001968 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 395494001969 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 395494001970 SecY translocase; Region: SecY; pfam00344 395494001971 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 395494001972 rRNA binding site [nucleotide binding]; other site 395494001973 predicted 30S ribosome binding site; other site 395494001974 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 395494001975 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 395494001976 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 395494001977 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 395494001978 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 395494001979 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 395494001980 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 395494001981 RNA binding surface [nucleotide binding]; other site 395494001982 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 395494001983 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 395494001984 alphaNTD homodimer interface [polypeptide binding]; other site 395494001985 alphaNTD - beta interaction site [polypeptide binding]; other site 395494001986 alphaNTD - beta' interaction site [polypeptide binding]; other site 395494001987 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 395494001988 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 395494001989 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 395494001990 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 395494001991 dimer interface [polypeptide binding]; other site 395494001992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494001993 catalytic residue [active] 395494001994 GTP-binding protein YchF; Reviewed; Region: PRK09601 395494001995 YchF GTPase; Region: YchF; cd01900 395494001996 G1 box; other site 395494001997 GTP/Mg2+ binding site [chemical binding]; other site 395494001998 Switch I region; other site 395494001999 G2 box; other site 395494002000 Switch II region; other site 395494002001 G3 box; other site 395494002002 G4 box; other site 395494002003 G5 box; other site 395494002004 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 395494002005 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 395494002006 Helix-turn-helix domains; Region: HTH; cl00088 395494002007 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 395494002008 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 395494002009 Type III pantothenate kinase; Region: Pan_kinase; cl09130 395494002010 Sporulation related domain; Region: SPOR; cl10051 395494002011 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 395494002012 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494002013 dimer interface [polypeptide binding]; other site 395494002014 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395494002015 putative CheW interface [polypeptide binding]; other site 395494002016 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 395494002017 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 395494002018 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 395494002019 FeS/SAM binding site; other site 395494002020 TRAM domain; Region: TRAM; cl01282 395494002021 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 395494002022 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 395494002023 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 395494002024 Transporter associated domain; Region: CorC_HlyC; cl08393 395494002025 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 395494002026 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 395494002027 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 395494002028 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 395494002029 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 395494002030 FeS/SAM binding site; other site 395494002031 Pyruvate formate lyase 1; Region: PFL1; cd01678 395494002032 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 395494002033 coenzyme A binding site [chemical binding]; other site 395494002034 active site 395494002035 catalytic residues [active] 395494002036 glycine loop; other site 395494002037 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 395494002038 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494002039 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 395494002040 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 395494002041 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494002042 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 395494002043 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 395494002044 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 395494002045 ATP binding site [chemical binding]; other site 395494002046 putative Mg++ binding site [ion binding]; other site 395494002047 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 395494002048 nucleotide binding region [chemical binding]; other site 395494002049 ATP-binding site [chemical binding]; other site 395494002050 TRCF domain; Region: TRCF; cl04088 395494002051 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 395494002052 substrate binding site; other site 395494002053 dimer interface; other site 395494002054 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 395494002055 homotrimer interaction site [polypeptide binding]; other site 395494002056 zinc binding site [ion binding]; other site 395494002057 CDP-binding sites; other site 395494002058 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 395494002059 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 395494002060 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395494002061 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 395494002062 Fe-S cluster binding site [ion binding]; other site 395494002063 active site 395494002064 lysophospholipid transporter LplT; Provisional; Region: PRK11195 395494002065 alanine racemase; Reviewed; Region: dadX; PRK03646 395494002066 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 395494002067 active site 395494002068 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395494002069 substrate binding site [chemical binding]; other site 395494002070 catalytic residues [active] 395494002071 dimer interface [polypeptide binding]; other site 395494002072 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 395494002073 Flagellar protein YcgR; Region: YcgR_2; pfam12945 395494002074 PilZ domain; Region: PilZ; cl01260 395494002075 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 395494002076 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 395494002077 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395494002078 active site 395494002079 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 395494002080 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 395494002081 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 395494002082 intersubunit interface [polypeptide binding]; other site 395494002083 active site 395494002084 Zn2+ binding site [ion binding]; other site 395494002085 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 395494002086 PemK-like protein; Region: PemK; cl00995 395494002087 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 395494002088 elongation factor P; Validated; Region: PRK00529 395494002089 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 395494002090 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 395494002091 RNA binding site [nucleotide binding]; other site 395494002092 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 395494002093 RNA binding site [nucleotide binding]; other site 395494002094 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 395494002095 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 395494002096 ligand binding site; other site 395494002097 oligomer interface; other site 395494002098 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 395494002099 dimer interface [polypeptide binding]; other site 395494002100 N-terminal domain interface [polypeptide binding]; other site 395494002101 sulfate 1 binding site; other site 395494002102 RF-1 domain; Region: RF-1; cl02875 395494002103 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 395494002104 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 395494002105 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 395494002106 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 395494002107 Transcriptional regulator; Region: Transcrip_reg; cl00361 395494002108 HDOD domain; Region: HDOD; pfam08668 395494002109 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 395494002110 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395494002111 putative substrate translocation pore; other site 395494002112 Cation efflux family; Region: Cation_efflux; cl00316 395494002113 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 395494002114 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 395494002115 active site 395494002116 DNA binding site [nucleotide binding] 395494002117 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 395494002118 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 395494002119 Catalytic site [active] 395494002120 LexA repressor; Validated; Region: PRK00215 395494002121 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 395494002122 Catalytic site [active] 395494002123 cyclase homology domain; Region: CHD; cd07302 395494002124 nucleotidyl binding site; other site 395494002125 metal binding site [ion binding]; metal-binding site 395494002126 dimer interface [polypeptide binding]; other site 395494002127 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 395494002128 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 395494002129 MutS domain I; Region: MutS_I; pfam01624 395494002130 MutS domain II; Region: MutS_II; pfam05188 395494002131 MutS family domain IV; Region: MutS_IV; pfam05190 395494002132 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 395494002133 Walker A/P-loop; other site 395494002134 ATP binding site [chemical binding]; other site 395494002135 Q-loop/lid; other site 395494002136 ABC transporter signature motif; other site 395494002137 Walker B; other site 395494002138 D-loop; other site 395494002139 H-loop/switch region; other site 395494002140 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 395494002141 octamerization interface [polypeptide binding]; other site 395494002142 diferric-oxygen binding site [ion binding]; other site 395494002143 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 395494002144 PAS domain; Region: PAS_9; pfam13426 395494002145 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494002146 metal binding site [ion binding]; metal-binding site 395494002147 active site 395494002148 I-site; other site 395494002149 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 395494002150 active site 395494002151 dimerization interface [polypeptide binding]; other site 395494002152 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 395494002153 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395494002154 serine O-acetyltransferase; Region: cysE; TIGR01172 395494002155 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 395494002156 trimer interface [polypeptide binding]; other site 395494002157 active site 395494002158 substrate binding site [chemical binding]; other site 395494002159 CoA binding site [chemical binding]; other site 395494002160 Helix-turn-helix domains; Region: HTH; cl00088 395494002161 Rrf2 family protein; Region: rrf2_super; TIGR00738 395494002162 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 395494002163 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 395494002164 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395494002165 catalytic residue [active] 395494002166 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 395494002167 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 395494002168 trimerization site [polypeptide binding]; other site 395494002169 active site 395494002170 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 395494002171 co-chaperone HscB; Provisional; Region: hscB; PRK03578 395494002172 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 395494002173 HSP70 interaction site [polypeptide binding]; other site 395494002174 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 395494002175 chaperone protein HscA; Provisional; Region: hscA; PRK05183 395494002176 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 395494002177 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 395494002178 catalytic loop [active] 395494002179 iron binding site [ion binding]; other site 395494002180 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 395494002181 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 395494002182 excinuclease ABC subunit B; Provisional; Region: PRK05298 395494002183 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 395494002184 ATP binding site [chemical binding]; other site 395494002185 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 395494002186 nucleotide binding region [chemical binding]; other site 395494002187 ATP-binding site [chemical binding]; other site 395494002188 Ultra-violet resistance protein B; Region: UvrB; pfam12344 395494002189 UvrB/uvrC motif; Region: UVR; pfam02151 395494002190 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494002191 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494002192 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494002193 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 395494002194 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 395494002195 Domain of unknown function (DUF336); Region: DUF336; cl01249 395494002196 adenylate kinase; Reviewed; Region: adk; PRK00279 395494002197 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 395494002198 AMP-binding site [chemical binding]; other site 395494002199 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 395494002200 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 395494002201 Ligand binding site; other site 395494002202 oligomer interface; other site 395494002203 Trm112p-like protein; Region: Trm112p; cl01066 395494002204 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 395494002205 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 395494002206 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 395494002207 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395494002208 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 395494002209 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 395494002210 generic binding surface II; other site 395494002211 generic binding surface I; other site 395494002212 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 395494002213 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 395494002214 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 395494002215 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494002216 Walker A motif; other site 395494002217 ATP binding site [chemical binding]; other site 395494002218 Walker B motif; other site 395494002219 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 395494002220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494002221 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 395494002222 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 395494002223 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 395494002224 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 395494002225 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 395494002226 inhibitor-cofactor binding pocket; inhibition site 395494002227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494002228 catalytic residue [active] 395494002229 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 395494002230 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 395494002231 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 395494002232 Ligand binding site; other site 395494002233 Putative Catalytic site; other site 395494002234 DXD motif; other site 395494002235 putative formyltransferase; Provisional; Region: PRK06988 395494002236 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 395494002237 active site 395494002238 substrate binding site [chemical binding]; other site 395494002239 cosubstrate binding site; other site 395494002240 catalytic site [active] 395494002241 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 395494002242 active site 395494002243 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 395494002244 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 395494002245 NAD binding site [chemical binding]; other site 395494002246 substrate binding site [chemical binding]; other site 395494002247 active site 395494002248 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 395494002249 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 395494002250 putative active site [active] 395494002251 putative catalytic site [active] 395494002252 putative Zn binding site [ion binding]; other site 395494002253 HDOD domain; Region: HDOD; pfam08668 395494002254 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 395494002255 DNA binding site [nucleotide binding] 395494002256 Int/Topo IB signature motif; other site 395494002257 active site 395494002258 catalytic residues [active] 395494002259 Restriction endonuclease; Region: Mrr_cat; cl00516 395494002260 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494002261 active site 395494002262 ATP binding site [chemical binding]; other site 395494002263 substrate binding site [chemical binding]; other site 395494002264 activation loop (A-loop); other site 395494002265 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494002266 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494002267 Family description; Region: UvrD_C_2; cl15862 395494002268 AAA domain; Region: AAA_18; pfam13238 395494002269 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 395494002270 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494002271 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 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 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 395494002276 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 395494002277 Active Sites [active] 395494002278 DNA primase; Validated; Region: dnaG; PRK05667 395494002279 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 395494002280 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 395494002281 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 395494002282 active site 395494002283 interdomain interaction site; other site 395494002284 putative metal-binding site [ion binding]; other site 395494002285 nucleotide binding site [chemical binding]; other site 395494002286 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 395494002287 domain I; other site 395494002288 DNA binding groove [nucleotide binding] 395494002289 phosphate binding site [ion binding]; other site 395494002290 domain II; other site 395494002291 domain III; other site 395494002292 nucleotide binding site [chemical binding]; other site 395494002293 catalytic site [active] 395494002294 domain IV; other site 395494002295 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395494002296 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 395494002297 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 395494002298 Walker A motif; other site 395494002299 ATP binding site [chemical binding]; other site 395494002300 Walker B motif; other site 395494002301 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395494002302 Integrase core domain; Region: rve; cl01316 395494002303 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395494002304 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 395494002305 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 395494002306 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 395494002307 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494002308 Protein of unknown function, DUF; Region: DUF411; cl01142 395494002309 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 395494002310 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494002311 Zn2+ binding site [ion binding]; other site 395494002312 Mg2+ binding site [ion binding]; other site 395494002313 conserved hypothetical protein; Region: TIGR02270 395494002314 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 395494002315 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 395494002316 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494002317 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395494002318 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494002319 Phospholipid methyltransferase; Region: PEMT; cl00763 395494002320 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 395494002321 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 395494002322 IHF dimer interface [polypeptide binding]; other site 395494002323 IHF - DNA interface [nucleotide binding]; other site 395494002324 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395494002325 CHC2 zinc finger; Region: zf-CHC2; cl15369 395494002326 hypothetical protein; Validated; Region: PRK07078 395494002327 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 395494002328 active site 395494002329 metal binding site [ion binding]; metal-binding site 395494002330 interdomain interaction site; other site 395494002331 Domain of unknown function (DUF927); Region: DUF927; cl12098 395494002332 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 395494002333 YokU-like protein; Region: YokU; cl15819 395494002334 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 395494002335 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395494002336 Integrase core domain; Region: rve; cl01316 395494002337 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 395494002338 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395494002339 Helix-turn-helix domains; Region: HTH; cl00088 395494002340 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 395494002341 DNA binding site [nucleotide binding] 395494002342 Int/Topo IB signature motif; other site 395494002343 active site 395494002344 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395494002345 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395494002346 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 395494002347 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 395494002348 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 395494002349 ligand binding site [chemical binding]; other site 395494002350 flexible hinge region; other site 395494002351 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 395494002352 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 395494002353 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 395494002354 salt bridge; other site 395494002355 non-specific DNA binding site [nucleotide binding]; other site 395494002356 sequence-specific DNA binding site [nucleotide binding]; other site 395494002357 Restriction endonuclease; Region: Mrr_cat; cl00516 395494002358 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 395494002359 GIY-YIG motif/motif A; other site 395494002360 putative active site [active] 395494002361 putative metal binding site [ion binding]; other site 395494002362 HDOD domain; Region: HDOD; pfam08668 395494002363 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494002364 Zn2+ binding site [ion binding]; other site 395494002365 Mg2+ binding site [ion binding]; other site 395494002366 PAS domain S-box; Region: sensory_box; TIGR00229 395494002367 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 395494002368 dimer interface [polypeptide binding]; other site 395494002369 phosphorylation site [posttranslational modification] 395494002370 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002372 active site 395494002373 phosphorylation site [posttranslational modification] 395494002374 intermolecular recognition site; other site 395494002375 dimerization interface [polypeptide binding]; other site 395494002376 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 395494002377 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002378 active site 395494002379 phosphorylation site [posttranslational modification] 395494002380 intermolecular recognition site; other site 395494002381 dimerization interface [polypeptide binding]; other site 395494002382 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494002383 Zn2+ binding site [ion binding]; other site 395494002384 Mg2+ binding site [ion binding]; other site 395494002385 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395494002386 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494002387 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 395494002388 PAS fold; Region: PAS; pfam00989 395494002389 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 395494002390 putative active site [active] 395494002391 heme pocket [chemical binding]; other site 395494002392 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 395494002393 dimer interface [polypeptide binding]; other site 395494002394 phosphorylation site [posttranslational modification] 395494002395 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 395494002396 ATP binding site [chemical binding]; other site 395494002397 Mg2+ binding site [ion binding]; other site 395494002398 G-X-G motif; other site 395494002399 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002400 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002401 active site 395494002402 phosphorylation site [posttranslational modification] 395494002403 intermolecular recognition site; other site 395494002404 dimerization interface [polypeptide binding]; other site 395494002405 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002406 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002407 active site 395494002408 phosphorylation site [posttranslational modification] 395494002409 intermolecular recognition site; other site 395494002410 dimerization interface [polypeptide binding]; other site 395494002411 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 395494002412 PAS domain S-box; Region: sensory_box; TIGR00229 395494002413 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 395494002414 putative active site [active] 395494002415 PAS fold; Region: PAS_3; pfam08447 395494002416 heme pocket [chemical binding]; other site 395494002417 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 395494002418 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494002419 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 395494002420 dimer interface [polypeptide binding]; other site 395494002421 phosphorylation site [posttranslational modification] 395494002422 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 395494002423 ATP binding site [chemical binding]; other site 395494002424 Mg2+ binding site [ion binding]; other site 395494002425 G-X-G motif; other site 395494002426 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 395494002427 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 395494002428 dimerization interface [polypeptide binding]; other site 395494002429 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494002430 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 395494002431 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 395494002432 dimer interface [polypeptide binding]; other site 395494002433 phosphorylation site [posttranslational modification] 395494002434 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 395494002435 ATP binding site [chemical binding]; other site 395494002436 Mg2+ binding site [ion binding]; other site 395494002437 G-X-G motif; other site 395494002438 NMT1-like family; Region: NMT1_2; cl15260 395494002439 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395494002440 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 395494002441 PAS domain; Region: PAS_9; pfam13426 395494002442 putative active site [active] 395494002443 heme pocket [chemical binding]; other site 395494002444 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494002445 metal binding site [ion binding]; metal-binding site 395494002446 active site 395494002447 I-site; other site 395494002448 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002449 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002450 active site 395494002451 phosphorylation site [posttranslational modification] 395494002452 intermolecular recognition site; other site 395494002453 dimerization interface [polypeptide binding]; other site 395494002454 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 395494002455 DNA binding residues [nucleotide binding] 395494002456 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002458 active site 395494002459 phosphorylation site [posttranslational modification] 395494002460 intermolecular recognition site; other site 395494002461 dimerization interface [polypeptide binding]; other site 395494002462 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002463 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002464 active site 395494002465 phosphorylation site [posttranslational modification] 395494002466 intermolecular recognition site; other site 395494002467 dimerization interface [polypeptide binding]; other site 395494002468 PAS domain S-box; Region: sensory_box; TIGR00229 395494002469 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 395494002470 putative active site [active] 395494002471 heme pocket [chemical binding]; other site 395494002472 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494002473 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 395494002474 putative active site [active] 395494002475 heme pocket [chemical binding]; other site 395494002476 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 395494002477 dimer interface [polypeptide binding]; other site 395494002478 phosphorylation site [posttranslational modification] 395494002479 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 395494002480 ATP binding site [chemical binding]; other site 395494002481 Mg2+ binding site [ion binding]; other site 395494002482 G-X-G motif; other site 395494002483 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002484 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002485 active site 395494002486 phosphorylation site [posttranslational modification] 395494002487 intermolecular recognition site; other site 395494002488 dimerization interface [polypeptide binding]; other site 395494002489 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 395494002490 putative binding surface; other site 395494002491 active site 395494002492 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002493 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002494 active site 395494002495 phosphorylation site [posttranslational modification] 395494002496 intermolecular recognition site; other site 395494002497 dimerization interface [polypeptide binding]; other site 395494002498 FIST N domain; Region: FIST; cl10701 395494002499 Uncharacterized conserved protein [Function unknown]; Region: COG3287 395494002500 FIST C domain; Region: FIST_C; pfam10442 395494002501 PAS fold; Region: PAS_4; pfam08448 395494002502 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 395494002503 putative active site [active] 395494002504 heme pocket [chemical binding]; other site 395494002505 GAF domain; Region: GAF_2; pfam13185 395494002506 GAF domain; Region: GAF; cl15785 395494002507 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494002508 metal binding site [ion binding]; metal-binding site 395494002509 active site 395494002510 I-site; other site 395494002511 Helix-turn-helix domains; Region: HTH; cl00088 395494002512 Rrf2 family protein; Region: rrf2_super; TIGR00738 395494002513 Cytochrome c; Region: Cytochrom_C; cl11414 395494002514 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 395494002515 Low-spin heme binding site [chemical binding]; other site 395494002516 D-pathway; other site 395494002517 Putative water exit pathway; other site 395494002518 Binuclear center (active site) [active] 395494002519 K-pathway; other site 395494002520 Putative proton exit pathway; other site 395494002521 NnrS protein; Region: NnrS; cl01258 395494002522 Nitrate and nitrite sensing; Region: NIT; pfam08376 395494002523 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 395494002524 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494002525 dimer interface [polypeptide binding]; other site 395494002526 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395494002527 putative CheW interface [polypeptide binding]; other site 395494002528 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494002529 Zn2+ binding site [ion binding]; other site 395494002530 Mg2+ binding site [ion binding]; other site 395494002531 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 395494002532 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494002533 Zn2+ binding site [ion binding]; other site 395494002534 Mg2+ binding site [ion binding]; other site 395494002535 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 395494002536 PAS domain; Region: PAS_9; pfam13426 395494002537 putative active site [active] 395494002538 heme pocket [chemical binding]; other site 395494002539 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494002540 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494002541 dimer interface [polypeptide binding]; other site 395494002542 putative CheW interface [polypeptide binding]; other site 395494002543 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 395494002544 DNA binding residues [nucleotide binding] 395494002545 Response regulator receiver domain; Region: Response_reg; pfam00072 395494002546 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002547 active site 395494002548 phosphorylation site [posttranslational modification] 395494002549 intermolecular recognition site; other site 395494002550 dimerization interface [polypeptide binding]; other site 395494002551 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395494002552 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 395494002553 dimer interface [polypeptide binding]; other site 395494002554 conserved gate region; other site 395494002555 putative PBP binding loops; other site 395494002556 ABC-ATPase subunit interface; other site 395494002557 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395494002558 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 395494002559 Walker A/P-loop; other site 395494002560 ATP binding site [chemical binding]; other site 395494002561 Q-loop/lid; other site 395494002562 ABC transporter signature motif; other site 395494002563 Walker B; other site 395494002564 D-loop; other site 395494002565 H-loop/switch region; other site 395494002566 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 395494002567 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 395494002568 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 395494002569 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 395494002570 urea carboxylase; Region: urea_carbox; TIGR02712 395494002571 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395494002572 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395494002573 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395494002574 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 395494002575 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 395494002576 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 395494002577 carboxyltransferase (CT) interaction site; other site 395494002578 biotinylation site [posttranslational modification]; other site 395494002579 allophanate hydrolase; Provisional; Region: PRK08186 395494002580 Amidase; Region: Amidase; cl11426 395494002581 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 395494002582 NMT1-like family; Region: NMT1_2; cl15260 395494002583 NMT1/THI5 like; Region: NMT1; pfam09084 395494002584 PilZ domain; Region: PilZ; cl01260 395494002585 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 395494002586 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 395494002587 cysteine synthase B; Region: cysM; TIGR01138 395494002588 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 395494002589 dimer interface [polypeptide binding]; other site 395494002590 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494002591 catalytic residue [active] 395494002592 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 395494002593 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 395494002594 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395494002595 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 395494002596 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395494002597 AMIN domain; Region: AMIN; pfam11741 395494002598 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 395494002599 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 395494002600 active site 395494002601 metal binding site [ion binding]; metal-binding site 395494002602 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 395494002603 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 395494002604 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 395494002605 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 395494002606 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 395494002607 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494002608 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 395494002609 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494002610 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494002611 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 395494002612 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 395494002613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494002614 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 395494002615 Domain of unknown function (DUF389); Region: DUF389; cl00781 395494002616 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 395494002617 transmembrane helices; other site 395494002618 adenylate kinase; Provisional; Region: PRK13808 395494002619 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 395494002620 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; cl15754 395494002621 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 395494002622 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 395494002623 motif II; other site 395494002624 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 395494002625 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 395494002626 tandem repeat interface [polypeptide binding]; other site 395494002627 oligomer interface [polypeptide binding]; other site 395494002628 active site residues [active] 395494002629 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 395494002630 active site 395494002631 catalytic triad [active] 395494002632 oxyanion hole [active] 395494002633 switch loop; other site 395494002634 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395494002635 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 395494002636 Walker A/P-loop; other site 395494002637 ATP binding site [chemical binding]; other site 395494002638 Q-loop/lid; other site 395494002639 ABC transporter signature motif; other site 395494002640 Walker B; other site 395494002641 D-loop; other site 395494002642 H-loop/switch region; other site 395494002643 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 395494002644 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 395494002645 Phosphopantetheine attachment site; Region: PP-binding; cl09936 395494002646 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 395494002647 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 395494002648 dimer interface [polypeptide binding]; other site 395494002649 active site 395494002650 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 395494002651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494002652 catalytic residue [active] 395494002653 YceG-like family; Region: YceG; pfam02618 395494002654 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 395494002655 dimerization interface [polypeptide binding]; other site 395494002656 thymidylate kinase; Validated; Region: tmk; PRK00698 395494002657 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 395494002658 TMP-binding site; other site 395494002659 ATP-binding site [chemical binding]; other site 395494002660 DNA polymerase III subunit delta'; Validated; Region: PRK06964 395494002661 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 395494002662 active site 395494002663 AAA domain; Region: AAA_25; pfam13481 395494002664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494002665 Walker A motif; other site 395494002666 ATP binding site [chemical binding]; other site 395494002667 Walker B motif; other site 395494002668 stationary phase growth adaptation protein; Provisional; Region: PRK09717 395494002669 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 395494002670 DNA binding site [nucleotide binding] 395494002671 Int/Topo IB signature motif; other site 395494002672 active site 395494002673 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395494002674 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494002675 Walker A/P-loop; other site 395494002676 ATP binding site [chemical binding]; other site 395494002677 Q-loop/lid; other site 395494002678 ABC transporter signature motif; other site 395494002679 Walker B; other site 395494002680 D-loop; other site 395494002681 H-loop/switch region; other site 395494002682 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 395494002683 active site 395494002684 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 395494002685 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 395494002686 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 395494002687 dimer interface [polypeptide binding]; other site 395494002688 active site 395494002689 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 395494002690 Ligand Binding Site [chemical binding]; other site 395494002691 Molecular Tunnel; other site 395494002692 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 395494002693 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395494002694 Helix-turn-helix domains; Region: HTH; cl00088 395494002695 FOG: CBS domain [General function prediction only]; Region: COG0517 395494002696 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 395494002697 FOG: CBS domain [General function prediction only]; Region: COG0517 395494002698 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 395494002699 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 395494002700 PAS fold; Region: PAS_4; pfam08448 395494002701 GAF domain; Region: GAF_2; pfam13185 395494002702 GAF domain; Region: GAF; cl15785 395494002703 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 395494002704 PAS domain; Region: PAS_9; pfam13426 395494002705 putative active site [active] 395494002706 heme pocket [chemical binding]; other site 395494002707 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494002708 metal binding site [ion binding]; metal-binding site 395494002709 active site 395494002710 I-site; other site 395494002711 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 395494002712 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002713 active site 395494002714 phosphorylation site [posttranslational modification] 395494002715 intermolecular recognition site; other site 395494002716 dimerization interface [polypeptide binding]; other site 395494002717 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 395494002718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002719 active site 395494002720 phosphorylation site [posttranslational modification] 395494002721 intermolecular recognition site; other site 395494002722 dimerization interface [polypeptide binding]; other site 395494002723 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494002724 Zn2+ binding site [ion binding]; other site 395494002725 Mg2+ binding site [ion binding]; other site 395494002726 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 395494002727 octamerization interface [polypeptide binding]; other site 395494002728 diferric-oxygen binding site [ion binding]; other site 395494002729 sensory histidine kinase AtoS; Provisional; Region: PRK11360 395494002730 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 395494002731 ATP binding site [chemical binding]; other site 395494002732 Mg2+ binding site [ion binding]; other site 395494002733 G-X-G motif; other site 395494002734 PAS domain S-box; Region: sensory_box; TIGR00229 395494002735 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 395494002736 putative active site [active] 395494002737 heme pocket [chemical binding]; other site 395494002738 GAF domain; Region: GAF_2; pfam13185 395494002739 GAF domain; Region: GAF; cl15785 395494002740 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 395494002741 dimer interface [polypeptide binding]; other site 395494002742 phosphorylation site [posttranslational modification] 395494002743 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 395494002744 ATP binding site [chemical binding]; other site 395494002745 Mg2+ binding site [ion binding]; other site 395494002746 G-X-G motif; other site 395494002747 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 395494002748 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 395494002749 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395494002750 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395494002751 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395494002752 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 395494002753 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; cl09108 395494002754 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 key...; Region: CBS_pair_IMPDH; cd04601 395494002755 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 the guanine...; Region: IMPDH; cd00381 395494002756 active site 395494002757 GMP synthase; Reviewed; Region: guaA; PRK00074 395494002758 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 395494002759 AMP/PPi binding site [chemical binding]; other site 395494002760 candidate oxyanion hole; other site 395494002761 catalytic triad [active] 395494002762 potential glutamine specificity residues [chemical binding]; other site 395494002763 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 395494002764 ATP Binding subdomain [chemical binding]; other site 395494002765 Ligand Binding sites [chemical binding]; other site 395494002766 Dimerization subdomain; other site 395494002767 Cytochrome c; Region: Cytochrom_C; cl11414 395494002768 Cytochrome c; Region: Cytochrom_C; cl11414 395494002769 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 395494002770 FAD binding pocket [chemical binding]; other site 395494002771 FAD binding motif [chemical binding]; other site 395494002772 phosphate binding motif [ion binding]; other site 395494002773 beta-alpha-beta structure motif; other site 395494002774 NAD binding pocket [chemical binding]; other site 395494002775 Heme binding pocket [chemical binding]; other site 395494002776 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 395494002777 catalytic loop [active] 395494002778 iron binding site [ion binding]; other site 395494002779 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 395494002780 DDE superfamily endonuclease; Region: DDE_5; cl02413 395494002781 DDE superfamily endonuclease; Region: DDE_5; cl02413 395494002782 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494002783 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 395494002784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002785 active site 395494002786 phosphorylation site [posttranslational modification] 395494002787 intermolecular recognition site; other site 395494002788 dimerization interface [polypeptide binding]; other site 395494002789 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 395494002790 DNA binding site [nucleotide binding] 395494002791 sensor protein QseC; Provisional; Region: PRK10337 395494002792 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 395494002793 dimer interface [polypeptide binding]; other site 395494002794 phosphorylation site [posttranslational modification] 395494002795 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 395494002796 ATP binding site [chemical binding]; other site 395494002797 Mg2+ binding site [ion binding]; other site 395494002798 G-X-G motif; other site 395494002799 Predicted transcriptional regulator [Transcription]; Region: COG4190 395494002800 Helix-turn-helix domains; Region: HTH; cl00088 395494002801 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494002802 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 395494002803 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 395494002804 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494002805 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395494002806 Short C-terminal domain; Region: SHOCT; cl01373 395494002807 Domain of unknown function DUF302; Region: DUF302; cl01364 395494002808 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395494002809 metal binding site 2 [ion binding]; metal-binding site 395494002810 putative DNA binding helix; other site 395494002811 metal binding site 1 [ion binding]; metal-binding site 395494002812 dimer interface [polypeptide binding]; other site 395494002813 structural Zn2+ binding site [ion binding]; other site 395494002814 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395494002815 Iron permease FTR1 family; Region: FTR1; cl00475 395494002816 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395494002817 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 395494002818 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494002819 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494002820 EamA-like transporter family; Region: EamA; cl01037 395494002821 Replication initiator protein A; Region: RPA; cl02339 395494002822 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 395494002823 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494002824 Walker A motif; other site 395494002825 ATP binding site [chemical binding]; other site 395494002826 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 395494002827 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 395494002828 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 395494002829 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 395494002830 Helix-turn-helix domains; Region: HTH; cl00088 395494002831 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 395494002832 IHF - DNA interface [nucleotide binding]; other site 395494002833 IHF dimer interface [polypeptide binding]; other site 395494002834 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 395494002835 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 395494002836 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 395494002837 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 395494002838 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 395494002839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494002840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494002841 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 395494002842 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 395494002843 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 395494002844 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 395494002845 Predicted ATPase [General function prediction only]; Region: COG4637 395494002846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494002847 Walker A/P-loop; other site 395494002848 ATP binding site [chemical binding]; other site 395494002849 Divergent AAA domain; Region: AAA_4; pfam04326 395494002850 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 395494002851 TIGR02687 family protein; Region: TIGR02687 395494002852 PglZ domain; Region: PglZ; pfam08665 395494002853 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 395494002854 Putative ATP-dependent Lon protease; Region: Lon_2; cl11979 395494002855 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 395494002856 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 395494002857 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 395494002858 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494002859 active site 395494002860 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 395494002861 active site 395494002862 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 395494002863 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 395494002864 dimer interface [polypeptide binding]; other site 395494002865 glycine-pyridoxal phosphate binding site [chemical binding]; other site 395494002866 active site 395494002867 folate binding site [chemical binding]; other site 395494002868 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 395494002869 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 395494002870 THF binding site; other site 395494002871 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 395494002872 substrate binding site [chemical binding]; other site 395494002873 THF binding site; other site 395494002874 zinc-binding site [ion binding]; other site 395494002875 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 395494002876 Helix-turn-helix domains; Region: HTH; cl00088 395494002877 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 395494002878 putative dimerization interface [polypeptide binding]; other site 395494002879 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 395494002880 Phage integrase protein; Region: DUF3701; pfam12482 395494002881 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 395494002882 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 395494002883 DNA binding site [nucleotide binding] 395494002884 Int/Topo IB signature motif; other site 395494002885 active site 395494002886 PRTRC system protein D; Region: PRTRC_D; TIGR03739 395494002887 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 395494002888 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494002889 Family description; Region: UvrD_C_2; cl15862 395494002890 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 395494002891 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 395494002892 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 395494002893 Walker A/P-loop; other site 395494002894 ATP binding site [chemical binding]; other site 395494002895 Q-loop/lid; other site 395494002896 ABC transporter signature motif; other site 395494002897 Walker B; other site 395494002898 D-loop; other site 395494002899 H-loop/switch region; other site 395494002900 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494002901 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494002902 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494002903 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494002904 Zn2+ binding site [ion binding]; other site 395494002905 Mg2+ binding site [ion binding]; other site 395494002906 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 395494002907 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 395494002908 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494002909 active site 395494002910 phosphorylation site [posttranslational modification] 395494002911 intermolecular recognition site; other site 395494002912 dimerization interface [polypeptide binding]; other site 395494002913 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 395494002914 DNA binding site [nucleotide binding] 395494002915 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 395494002916 dimer interface [polypeptide binding]; other site 395494002917 phosphorylation site [posttranslational modification] 395494002918 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 395494002919 ATP binding site [chemical binding]; other site 395494002920 Mg2+ binding site [ion binding]; other site 395494002921 G-X-G motif; other site 395494002922 EamA-like transporter family; Region: EamA; cl01037 395494002923 Helix-turn-helix domains; Region: HTH; cl00088 395494002924 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395494002925 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 395494002926 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 395494002927 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395494002928 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395494002929 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 395494002930 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 395494002931 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 395494002932 MgtC family; Region: MgtC; pfam02308 395494002933 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395494002934 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 395494002935 metal-binding site [ion binding] 395494002936 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494002937 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494002938 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395494002939 EamA-like transporter family; Region: EamA; cl01037 395494002940 EamA-like transporter family; Region: EamA; cl01037 395494002941 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 395494002942 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 395494002943 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 395494002944 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 395494002945 TraU protein; Region: TraU; cl06067 395494002946 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 395494002947 Putative helicase; Region: TraI_2; pfam07514 395494002948 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 395494002949 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 395494002950 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 395494002951 RecT family; Region: RecT; cl04285 395494002952 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 395494002953 dimer interface [polypeptide binding]; other site 395494002954 ssDNA binding site [nucleotide binding]; other site 395494002955 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395494002956 CHC2 zinc finger; Region: zf-CHC2; cl15369 395494002957 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 395494002958 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 395494002959 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 395494002960 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 395494002961 putative active site [active] 395494002962 putative NTP binding site [chemical binding]; other site 395494002963 putative nucleic acid binding site [nucleotide binding]; other site 395494002964 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 395494002965 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 395494002966 active site 395494002967 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 395494002968 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 395494002969 MPN+ (JAMM) motif; other site 395494002970 Zinc-binding site [ion binding]; other site 395494002971 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 395494002972 ParB-like nuclease domain; Region: ParBc; cl02129 395494002973 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 395494002974 Helix-turn-helix domains; Region: HTH; cl00088 395494002975 PRTRC system protein E; Region: PRTRC_E; TIGR03741 395494002976 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 395494002977 PRTRC system protein F; Region: PRTRC_F; TIGR03742 395494002978 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 395494002979 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 395494002980 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 395494002981 PRTRC system protein A; Region: PRTRC_A; TIGR03735 395494002982 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 395494002983 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 395494002984 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 395494002985 ATP binding site [chemical binding]; other site 395494002986 substrate interface [chemical binding]; other site 395494002987 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395494002988 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395494002989 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395494002990 Fic/DOC family; Region: Fic; cl00960 395494002991 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395494002992 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 395494002993 non-specific DNA binding site [nucleotide binding]; other site 395494002994 salt bridge; other site 395494002995 sequence-specific DNA binding site [nucleotide binding]; other site 395494002996 HipA N-terminal domain; Region: Couple_hipA; cl11853 395494002997 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395494002998 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395494002999 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 395494003000 PAS domain; Region: PAS_9; pfam13426 395494003001 putative active site [active] 395494003002 heme pocket [chemical binding]; other site 395494003003 PAS domain S-box; Region: sensory_box; TIGR00229 395494003004 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 395494003005 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003006 metal binding site [ion binding]; metal-binding site 395494003007 active site 395494003008 I-site; other site 395494003009 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 395494003010 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494003011 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003012 dimer interface [polypeptide binding]; other site 395494003013 putative CheW interface [polypeptide binding]; other site 395494003014 HDOD domain; Region: HDOD; pfam08668 395494003015 Response regulator receiver domain; Region: Response_reg; pfam00072 395494003016 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003017 active site 395494003018 phosphorylation site [posttranslational modification] 395494003019 intermolecular recognition site; other site 395494003020 dimerization interface [polypeptide binding]; other site 395494003021 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003022 metal binding site [ion binding]; metal-binding site 395494003023 active site 395494003024 I-site; other site 395494003025 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 395494003026 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494003027 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003028 active site 395494003029 phosphorylation site [posttranslational modification] 395494003030 intermolecular recognition site; other site 395494003031 dimerization interface [polypeptide binding]; other site 395494003032 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 395494003033 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003034 active site 395494003035 phosphorylation site [posttranslational modification] 395494003036 intermolecular recognition site; other site 395494003037 dimerization interface [polypeptide binding]; other site 395494003038 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 395494003039 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003040 active site 395494003041 phosphorylation site [posttranslational modification] 395494003042 intermolecular recognition site; other site 395494003043 dimerization interface [polypeptide binding]; other site 395494003044 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 395494003045 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395494003046 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 395494003047 ATP binding site [chemical binding]; other site 395494003048 Mg2+ binding site [ion binding]; other site 395494003049 G-X-G motif; other site 395494003050 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 395494003051 Fic family protein [Function unknown]; Region: COG3177 395494003052 Fic/DOC family; Region: Fic; cl00960 395494003053 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 395494003054 IHF dimer interface [polypeptide binding]; other site 395494003055 IHF - DNA interface [nucleotide binding]; other site 395494003056 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 395494003057 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 395494003058 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 395494003059 heme-binding site [chemical binding]; other site 395494003060 PAS domain S-box; Region: sensory_box; TIGR00229 395494003061 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 395494003062 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003063 metal binding site [ion binding]; metal-binding site 395494003064 active site 395494003065 I-site; other site 395494003066 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 395494003067 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 395494003068 non-specific DNA binding site [nucleotide binding]; other site 395494003069 salt bridge; other site 395494003070 sequence-specific DNA binding site [nucleotide binding]; other site 395494003071 HipA N-terminal domain; Region: Couple_hipA; cl11853 395494003072 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395494003073 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395494003074 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 395494003075 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395494003076 HipA N-terminal domain; Region: Couple_hipA; cl11853 395494003077 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 395494003078 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395494003079 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395494003080 RelB antitoxin; Region: RelB; cl01171 395494003081 HDOD domain; Region: HDOD; pfam08668 395494003082 Response regulator receiver domain; Region: Response_reg; pfam00072 395494003083 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003084 active site 395494003085 phosphorylation site [posttranslational modification] 395494003086 intermolecular recognition site; other site 395494003087 dimerization interface [polypeptide binding]; other site 395494003088 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003089 metal binding site [ion binding]; metal-binding site 395494003090 active site 395494003091 I-site; other site 395494003092 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 395494003093 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 395494003094 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 395494003095 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395494003096 flagellar motor protein MotB; Validated; Region: motB; PRK09041 395494003097 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395494003098 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395494003099 ligand binding site [chemical binding]; other site 395494003100 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 395494003101 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 395494003102 dimerization interface [polypeptide binding]; other site 395494003103 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494003104 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003105 dimer interface [polypeptide binding]; other site 395494003106 putative CheW interface [polypeptide binding]; other site 395494003107 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 395494003108 PAS domain; Region: PAS_9; pfam13426 395494003109 putative active site [active] 395494003110 heme pocket [chemical binding]; other site 395494003111 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 395494003112 dimerization interface [polypeptide binding]; other site 395494003113 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494003114 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003115 dimer interface [polypeptide binding]; other site 395494003116 putative CheW interface [polypeptide binding]; other site 395494003117 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395494003118 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 395494003119 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 395494003120 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003121 dimer interface [polypeptide binding]; other site 395494003122 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395494003123 putative CheW interface [polypeptide binding]; other site 395494003124 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 395494003125 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 395494003126 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003127 dimer interface [polypeptide binding]; other site 395494003128 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395494003129 putative CheW interface [polypeptide binding]; other site 395494003130 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 395494003131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003132 active site 395494003133 phosphorylation site [posttranslational modification] 395494003134 intermolecular recognition site; other site 395494003135 dimerization interface [polypeptide binding]; other site 395494003136 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 395494003137 Response regulator receiver domain; Region: Response_reg; pfam00072 395494003138 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003139 active site 395494003140 phosphorylation site [posttranslational modification] 395494003141 intermolecular recognition site; other site 395494003142 dimerization interface [polypeptide binding]; other site 395494003143 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 395494003144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003145 active site 395494003146 phosphorylation site [posttranslational modification] 395494003147 intermolecular recognition site; other site 395494003148 dimerization interface [polypeptide binding]; other site 395494003149 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 395494003150 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 395494003151 chemotaxis protein CheA; Provisional; Region: PRK10547 395494003152 putative binding surface; other site 395494003153 active site 395494003154 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395494003155 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 395494003156 ATP binding site [chemical binding]; other site 395494003157 Mg2+ binding site [ion binding]; other site 395494003158 G-X-G motif; other site 395494003159 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 395494003160 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003161 dimer interface [polypeptide binding]; other site 395494003162 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 395494003163 putative CheW interface [polypeptide binding]; other site 395494003164 Response regulator receiver domain; Region: Response_reg; pfam00072 395494003165 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003166 active site 395494003167 phosphorylation site [posttranslational modification] 395494003168 intermolecular recognition site; other site 395494003169 dimerization interface [polypeptide binding]; other site 395494003170 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 395494003171 putative binding surface; other site 395494003172 active site 395494003173 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395494003174 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 395494003175 ATP binding site [chemical binding]; other site 395494003176 Mg2+ binding site [ion binding]; other site 395494003177 G-X-G motif; other site 395494003178 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 395494003179 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 395494003180 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 395494003181 PAS domain; Region: PAS_9; pfam13426 395494003182 putative active site [active] 395494003183 heme pocket [chemical binding]; other site 395494003184 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395494003185 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 395494003186 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 395494003187 PAS domain; Region: PAS_9; pfam13426 395494003188 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494003189 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494003190 dimer interface [polypeptide binding]; other site 395494003191 putative CheW interface [polypeptide binding]; other site 395494003192 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395494003193 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 395494003194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003195 CheD chemotactic sensory transduction; Region: CheD; cl00810 395494003196 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 395494003197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003198 active site 395494003199 phosphorylation site [posttranslational modification] 395494003200 intermolecular recognition site; other site 395494003201 dimerization interface [polypeptide binding]; other site 395494003202 CheB methylesterase; Region: CheB_methylest; pfam01339 395494003203 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 395494003204 anti sigma factor interaction site; other site 395494003205 regulatory phosphorylation site [posttranslational modification]; other site 395494003206 Response regulator receiver domain; Region: Response_reg; pfam00072 395494003207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003208 active site 395494003209 phosphorylation site [posttranslational modification] 395494003210 intermolecular recognition site; other site 395494003211 dimerization interface [polypeptide binding]; other site 395494003212 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; cl00120 395494003213 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494003214 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003215 active site 395494003216 phosphorylation site [posttranslational modification] 395494003217 intermolecular recognition site; other site 395494003218 Response regulator receiver domain; Region: Response_reg; pfam00072 395494003219 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003220 active site 395494003221 phosphorylation site [posttranslational modification] 395494003222 intermolecular recognition site; other site 395494003223 dimerization interface [polypeptide binding]; other site 395494003224 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003225 metal binding site [ion binding]; metal-binding site 395494003226 active site 395494003227 I-site; other site 395494003228 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 395494003229 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 395494003230 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 395494003231 FHIPEP family; Region: FHIPEP; pfam00771 395494003232 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 395494003233 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494003234 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 395494003235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494003236 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 395494003237 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395494003238 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 395494003239 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 395494003240 DNA binding residues [nucleotide binding] 395494003241 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395494003242 flagellar motor protein MotA; Validated; Region: PRK08124 395494003243 flagellar motor protein MotD; Reviewed; Region: PRK09038 395494003244 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395494003245 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395494003246 ligand binding site [chemical binding]; other site 395494003247 FlgN protein; Region: FlgN; cl09176 395494003248 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 395494003249 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 395494003250 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 395494003251 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395494003252 catalytic residue [active] 395494003253 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 395494003254 SAF domain; Region: SAF; cl00555 395494003255 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 395494003256 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 395494003257 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 395494003258 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 395494003259 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395494003260 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 395494003261 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 395494003262 FlgD Ig-like domain; Region: FlgD_ig; cl15790 395494003263 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 395494003264 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 395494003265 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 395494003266 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395494003267 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395494003268 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 395494003269 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 395494003270 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395494003271 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 395494003272 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 395494003273 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 395494003274 Flagellar L-ring protein; Region: FlgH; cl00905 395494003275 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 395494003276 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 395494003277 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 395494003278 Rod binding protein; Region: Rod-binding; cl01626 395494003279 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 395494003280 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 395494003281 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 395494003282 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395494003283 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 395494003284 septum formation inhibitor; Reviewed; Region: minC; PRK00339 395494003285 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 395494003286 cell division inhibitor MinD; Provisional; Region: PRK10818 395494003287 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 395494003288 Switch I; other site 395494003289 Switch II; other site 395494003290 Septum formation topological specificity factor MinE; Region: MinE; cl00538 395494003291 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 395494003292 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 395494003293 FliP family; Region: FliP; cl00593 395494003294 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 395494003295 flagellar motor switch protein; Validated; Region: fliN; PRK05698 395494003296 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 395494003297 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 395494003298 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 395494003299 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 395494003300 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 395494003301 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 395494003302 Flagellar FliJ protein; Region: FliJ; pfam02050 395494003303 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 395494003304 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 395494003305 Walker A motif/ATP binding site; other site 395494003306 Walker B motif; other site 395494003307 Flagellar assembly protein FliH; Region: FliH; pfam02108 395494003308 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 395494003309 FliG C-terminal domain; Region: FliG_C; pfam01706 395494003310 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 395494003311 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 395494003312 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 395494003313 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 395494003314 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 395494003315 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 395494003316 binding surface 395494003317 TPR motif; other site 395494003318 TPR repeat; Region: TPR_11; pfam13414 395494003319 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 395494003320 binding surface 395494003321 TPR motif; other site 395494003322 TPR repeat; Region: TPR_11; pfam13414 395494003323 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 395494003324 binding surface 395494003325 TPR motif; other site 395494003326 TPR repeat; Region: TPR_11; pfam13414 395494003327 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 395494003328 S-adenosylmethionine binding site [chemical binding]; other site 395494003329 Flagellar regulator YcgR; Region: YcgR; pfam07317 395494003330 PilZ domain; Region: PilZ; cl01260 395494003331 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 395494003332 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 395494003333 Flagellar protein FliT; Region: FliT; cl05125 395494003334 Flagellar protein FliS; Region: FliS; cl00654 395494003335 flagellar capping protein; Reviewed; Region: fliD; PRK08032 395494003336 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 395494003337 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 395494003338 FlaG protein; Region: FlaG; cl00591 395494003339 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395494003340 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395494003341 TPR repeat; Region: TPR_11; pfam13414 395494003342 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 395494003343 binding surface 395494003344 TPR motif; other site 395494003345 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395494003346 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 395494003347 binding surface 395494003348 TPR motif; other site 395494003349 TPR repeat; Region: TPR_11; pfam13414 395494003350 TPR repeat; Region: TPR_11; pfam13414 395494003351 TPR repeat; Region: TPR_11; pfam13414 395494003352 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 395494003353 binding surface 395494003354 TPR motif; other site 395494003355 TPR repeat; Region: TPR_11; pfam13414 395494003356 TPR repeat; Region: TPR_11; pfam13414 395494003357 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 395494003358 binding surface 395494003359 TPR motif; other site 395494003360 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 395494003361 binding surface 395494003362 TPR motif; other site 395494003363 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 395494003364 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 395494003365 TPR motif; other site 395494003366 binding surface 395494003367 TPR repeat; Region: TPR_11; pfam13414 395494003368 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 395494003369 binding surface 395494003370 TPR motif; other site 395494003371 TPR repeat; Region: TPR_11; pfam13414 395494003372 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395494003373 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 395494003374 TPR repeat; Region: TPR_11; pfam13414 395494003375 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 395494003376 binding surface 395494003377 TPR motif; other site 395494003378 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 395494003379 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 395494003380 binding surface 395494003381 TPR motif; other site 395494003382 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 395494003383 binding surface 395494003384 TPR motif; other site 395494003385 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 395494003386 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 395494003387 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395494003388 TPR motif; other site 395494003389 binding surface 395494003390 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 395494003391 TPR motif; other site 395494003392 binding surface 395494003393 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 395494003394 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 395494003395 binding surface 395494003396 TPR motif; other site 395494003397 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 395494003398 binding surface 395494003399 TPR motif; other site 395494003400 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 395494003401 binding surface 395494003402 TPR motif; other site 395494003403 TPR repeat; Region: TPR_11; pfam13414 395494003404 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 395494003405 binding surface 395494003406 TPR motif; other site 395494003407 TPR repeat; Region: TPR_11; pfam13414 395494003408 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 395494003409 binding surface 395494003410 TPR motif; other site 395494003411 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395494003412 Glycosyl transferase family 41; Region: Glyco_transf_41; pfam13844 395494003413 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 395494003414 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 395494003415 TPP-binding site [chemical binding]; other site 395494003416 dimer interface [polypeptide binding]; other site 395494003417 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 395494003418 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 395494003419 PYR/PP interface [polypeptide binding]; other site 395494003420 dimer interface [polypeptide binding]; other site 395494003421 TPP binding site [chemical binding]; other site 395494003422 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395494003423 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 395494003424 FeS/SAM binding site; other site 395494003425 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395494003426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003427 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395494003428 extended (e) SDRs; Region: SDR_e; cd08946 395494003429 NAD(P) binding site [chemical binding]; other site 395494003430 active site 395494003431 substrate binding site [chemical binding]; other site 395494003432 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 395494003433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003434 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 395494003435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003436 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 395494003437 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 395494003438 classical (c) SDRs; Region: SDR_c; cd05233 395494003439 NAD(P) binding site [chemical binding]; other site 395494003440 active site 395494003441 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 395494003442 S-adenosylmethionine binding site [chemical binding]; other site 395494003443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003444 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 395494003445 NAD(P) binding site [chemical binding]; other site 395494003446 active site 395494003447 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 395494003448 B12 binding site [chemical binding]; other site 395494003449 B12-binding domain/radical SAM domain protein, MJ_0865 family; Region: B12_SAM_MJ_0865; TIGR04014 395494003450 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 395494003451 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 395494003452 FeS/SAM binding site; other site 395494003453 Radical SAM superfamily; Region: Radical_SAM; pfam04055 395494003454 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395494003455 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 395494003456 putative active site [active] 395494003457 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 395494003458 Radical SAM superfamily; Region: Radical_SAM; pfam04055 395494003459 FeS/SAM binding site; other site 395494003460 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 395494003461 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 395494003462 binding surface 395494003463 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395494003464 TPR motif; other site 395494003465 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 395494003466 binding surface 395494003467 TPR motif; other site 395494003468 TPR repeat; Region: TPR_11; pfam13414 395494003469 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 395494003470 binding surface 395494003471 TPR motif; other site 395494003472 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 395494003473 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 395494003474 binding surface 395494003475 TPR motif; other site 395494003476 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 395494003477 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 395494003478 binding surface 395494003479 TPR motif; other site 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 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 395494003484 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 395494003485 binding surface 395494003486 TPR motif; other site 395494003487 Tetratricopeptide repeat; Region: TPR_12; pfam13424 395494003488 TPR repeat; Region: TPR_11; pfam13414 395494003489 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 395494003490 binding surface 395494003491 TPR motif; other site 395494003492 TPR repeat; Region: TPR_11; pfam13414 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 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 395494003497 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003498 metal binding site [ion binding]; metal-binding site 395494003499 active site 395494003500 I-site; other site 395494003501 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395494003502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494003503 active site 395494003504 phosphorylation site [posttranslational modification] 395494003505 intermolecular recognition site; other site 395494003506 dimerization interface [polypeptide binding]; other site 395494003507 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 395494003508 DNA binding residues [nucleotide binding] 395494003509 dimerization interface [polypeptide binding]; other site 395494003510 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 395494003511 Catalytic domain of Protein Kinases; Region: PKc; cd00180 395494003512 active site 395494003513 ATP binding site [chemical binding]; other site 395494003514 substrate binding site [chemical binding]; other site 395494003515 activation loop (A-loop); other site 395494003516 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395494003517 cyclase homology domain; Region: CHD; cd07302 395494003518 nucleotidyl binding site; other site 395494003519 metal binding site [ion binding]; metal-binding site 395494003520 dimer interface [polypeptide binding]; other site 395494003521 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 395494003522 phosphopeptide binding site; other site 395494003523 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395494003524 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 395494003525 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 395494003526 putative active site [active] 395494003527 heme pocket [chemical binding]; other site 395494003528 bacterio-opsin activator; Provisional; Region: PRK13558 395494003529 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 395494003530 Histidine kinase; Region: HisKA_3; pfam07730 395494003531 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 395494003532 ATP binding site [chemical binding]; other site 395494003533 Mg2+ binding site [ion binding]; other site 395494003534 G-X-G motif; other site 395494003535 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 395494003536 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 395494003537 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 395494003538 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 395494003539 active site 395494003540 dimer interface [polypeptide binding]; other site 395494003541 motif 1; other site 395494003542 motif 2; other site 395494003543 motif 3; other site 395494003544 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 395494003545 anticodon binding site; other site 395494003546 translation initiation factor IF-3; Region: infC; TIGR00168 395494003547 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 395494003548 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 395494003549 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 395494003550 ribosomal protein L20; Region: rpl20; CHL00068 395494003551 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 395494003552 23S rRNA binding site [nucleotide binding]; other site 395494003553 L21 binding site [polypeptide binding]; other site 395494003554 L13 binding site [polypeptide binding]; other site 395494003555 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 395494003556 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 395494003557 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 395494003558 dimer interface [polypeptide binding]; other site 395494003559 motif 1; other site 395494003560 active site 395494003561 motif 2; other site 395494003562 motif 3; other site 395494003563 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 395494003564 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 395494003565 putative tRNA-binding site [nucleotide binding]; other site 395494003566 B3/4 domain; Region: B3_4; cl11458 395494003567 tRNA synthetase B5 domain; Region: B5; cl08394 395494003568 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 395494003569 dimer interface [polypeptide binding]; other site 395494003570 motif 1; other site 395494003571 motif 3; other site 395494003572 motif 2; other site 395494003573 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 395494003574 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 395494003575 IHF - DNA interface [nucleotide binding]; other site 395494003576 IHF dimer interface [polypeptide binding]; other site 395494003577 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 395494003578 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395494003579 DNA binding residues [nucleotide binding] 395494003580 Survival protein SurE; Region: SurE; cl00448 395494003581 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 395494003582 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 395494003583 S-adenosylmethionine binding site [chemical binding]; other site 395494003584 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 395494003585 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 395494003586 putative peptidoglycan binding site; other site 395494003587 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 395494003588 FeS/SAM binding site; other site 395494003589 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 395494003590 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 395494003591 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 395494003592 PAS fold; Region: PAS_4; pfam08448 395494003593 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 395494003594 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 395494003595 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 395494003596 hypothetical protein; Provisional; Region: PRK11295 395494003597 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; cl00083 395494003598 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 395494003599 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494003600 Family description; Region: UvrD_C_2; cl15862 395494003601 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 395494003602 dinuclear metal binding motif [ion binding]; other site 395494003603 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 395494003604 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 395494003605 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 395494003606 FOG: CBS domain [General function prediction only]; Region: COG0517 395494003607 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 395494003608 PAS fold; Region: PAS_4; pfam08448 395494003609 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 395494003610 putative active site [active] 395494003611 heme pocket [chemical binding]; other site 395494003612 GAF domain; Region: GAF_2; pfam13185 395494003613 GAF domain; Region: GAF; cl15785 395494003614 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494003615 GAF domain; Region: GAF; cl15785 395494003616 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 395494003617 PAS domain; Region: PAS_9; pfam13426 395494003618 putative active site [active] 395494003619 heme pocket [chemical binding]; other site 395494003620 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003621 metal binding site [ion binding]; metal-binding site 395494003622 active site 395494003623 I-site; other site 395494003624 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 395494003625 MAEBL; Provisional; Region: PTZ00121 395494003626 PII uridylyl-transferase; Provisional; Region: PRK03059 395494003627 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395494003628 metal binding triad; other site 395494003629 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395494003630 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395494003631 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 395494003632 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 395494003633 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 395494003634 active site 395494003635 DNA gyrase subunit A; Validated; Region: PRK05560 395494003636 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 in DNA...; Region: TOP4c; cd00187 395494003637 CAP-like domain; other site 395494003638 active site 395494003639 primary dimer interface [polypeptide binding]; other site 395494003640 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494003641 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494003642 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494003643 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494003644 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494003645 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494003646 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 395494003647 homodimer interface [polypeptide binding]; other site 395494003648 substrate-cofactor binding pocket; other site 395494003649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494003650 catalytic residue [active] 395494003651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003652 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 395494003653 L-serine binding site [chemical binding]; other site 395494003654 ACT domain interface; other site 395494003655 Chorismate mutase type II; Region: CM_2; cl00693 395494003656 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 395494003657 Prephenate dehydratase; Region: PDT; pfam00800 395494003658 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 395494003659 putative L-Phe binding site [chemical binding]; other site 395494003660 DDE superfamily endonuclease; Region: DDE_5; cl02413 395494003661 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494003662 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 395494003663 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 395494003664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494003665 homodimer interface [polypeptide binding]; other site 395494003666 catalytic residue [active] 395494003667 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 395494003668 NeuB family; Region: NeuB; cl00496 395494003669 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 395494003670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003671 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 395494003672 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 395494003673 hinge; other site 395494003674 active site 395494003675 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 395494003676 CMP-binding site; other site 395494003677 The sites determining sugar specificity; other site 395494003678 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 395494003679 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 395494003680 RNA binding site [nucleotide binding]; other site 395494003681 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 395494003682 RNA binding site [nucleotide binding]; other site 395494003683 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 395494003684 RNA binding site [nucleotide binding]; other site 395494003685 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 of...; Region: S1_RPS1_repeat_ec4; cd05689 395494003686 RNA binding site [nucleotide binding]; other site 395494003687 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 395494003688 RNA binding site [nucleotide binding]; other site 395494003689 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 of...; Region: S1_RPS1_repeat_ec6; cd05691 395494003690 RNA binding site [nucleotide binding]; other site 395494003691 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 395494003692 IHF dimer interface [polypeptide binding]; other site 395494003693 IHF - DNA interface [nucleotide binding]; other site 395494003694 tetratricopeptide repeat protein; Provisional; Region: PRK11788 395494003695 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 395494003696 binding surface 395494003697 TPR motif; other site 395494003698 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494003699 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 contains two...; Region: OMP_decarboxylase_like; cd04725 395494003700 active site 395494003701 dimer interface [polypeptide binding]; other site 395494003702 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395494003703 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 395494003704 putative ribose interaction site [chemical binding]; other site 395494003705 putative ADP binding site [chemical binding]; other site 395494003706 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 395494003707 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 395494003708 NADP binding site [chemical binding]; other site 395494003709 homopentamer interface [polypeptide binding]; other site 395494003710 substrate binding site [chemical binding]; other site 395494003711 active site 395494003712 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 395494003713 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494003714 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 395494003715 putative active site [active] 395494003716 heme pocket [chemical binding]; other site 395494003717 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 395494003718 PAS domain; Region: PAS_9; pfam13426 395494003719 putative active site [active] 395494003720 heme pocket [chemical binding]; other site 395494003721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003722 metal binding site [ion binding]; metal-binding site 395494003723 active site 395494003724 I-site; other site 395494003725 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 395494003726 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 395494003727 putative substrate translocation pore; other site 395494003728 metabolite-proton symporter; Region: 2A0106; TIGR00883 395494003729 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395494003730 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 395494003731 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 395494003732 dimer interface [polypeptide binding]; other site 395494003733 active site 395494003734 Phosphopantetheine attachment site; Region: PP-binding; cl09936 395494003735 Esterase/lipase [General function prediction only]; Region: COG1647 395494003736 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395494003737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003738 PQ loop repeat; Region: PQ-loop; cl12056 395494003739 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395494003740 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395494003741 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494003742 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 395494003743 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 395494003744 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 395494003745 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 395494003746 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 395494003747 active site 395494003748 Substrate binding site; other site 395494003749 Mg++ binding site; other site 395494003750 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 395494003751 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 395494003752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003753 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 395494003754 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003755 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 cysteine...; Region: CysQ; cd01638 395494003756 active site 395494003757 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 important for the assimilation of...; Region: APSK; cd02027 395494003758 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 395494003759 ligand-binding site [chemical binding]; other site 395494003760 S-adenosylmethionine synthetase; Validated; Region: PRK05250 395494003761 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 395494003762 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 395494003763 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 395494003764 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 395494003765 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 395494003766 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003767 metal binding site [ion binding]; metal-binding site 395494003768 active site 395494003769 I-site; other site 395494003770 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 395494003771 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395494003772 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395494003773 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 395494003774 metal binding triad [ion binding]; metal-binding site 395494003775 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 395494003776 Fumarase C-terminus; Region: Fumerase_C; cl00795 395494003777 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 395494003778 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 395494003779 Walker A motif; other site 395494003780 ATP binding site [chemical binding]; other site 395494003781 Walker B motif; other site 395494003782 arginine finger; other site 395494003783 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 395494003784 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14969 395494003785 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 395494003786 recombination protein RecR; Reviewed; Region: recR; PRK00076 395494003787 RecR protein; Region: RecR; pfam02132 395494003788 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 395494003789 putative active site [active] 395494003790 putative metal-binding site [ion binding]; other site 395494003791 tetramer interface [polypeptide binding]; other site 395494003792 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395494003793 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 395494003794 RNA binding surface [nucleotide binding]; other site 395494003795 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 395494003796 probable active site [active] 395494003797 cyclase homology domain; Region: CHD; cd07302 395494003798 nucleotidyl binding site; other site 395494003799 metal binding site [ion binding]; metal-binding site 395494003800 dimer interface [polypeptide binding]; other site 395494003801 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 395494003802 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494003803 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 395494003804 active site 395494003805 ATP binding site [chemical binding]; other site 395494003806 substrate binding site [chemical binding]; other site 395494003807 activation loop (A-loop); other site 395494003808 L-aspartate oxidase; Provisional; Region: PRK09077 395494003809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003810 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395494003811 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 395494003812 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395494003813 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 395494003814 DNA binding residues [nucleotide binding] 395494003815 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 395494003816 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 395494003817 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 395494003818 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 395494003819 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395494003820 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 395494003821 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 395494003822 protein binding site [polypeptide binding]; other site 395494003823 GTP-binding protein LepA; Provisional; Region: PRK05433 395494003824 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 395494003825 G1 box; other site 395494003826 putative GEF interaction site [polypeptide binding]; other site 395494003827 GTP/Mg2+ binding site [chemical binding]; other site 395494003828 Switch I region; other site 395494003829 G2 box; other site 395494003830 G3 box; other site 395494003831 Switch II region; other site 395494003832 G4 box; other site 395494003833 G5 box; other site 395494003834 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 395494003835 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 395494003836 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 395494003837 signal peptidase I; Provisional; Region: PRK10861 395494003838 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 395494003839 Catalytic site [active] 395494003840 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 395494003841 ribonuclease III; Reviewed; Region: rnc; PRK00102 395494003842 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 395494003843 dimerization interface [polypeptide binding]; other site 395494003844 active site 395494003845 metal binding site [ion binding]; metal-binding site 395494003846 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 395494003847 dsRNA binding site [nucleotide binding]; other site 395494003848 GTPase Era; Reviewed; Region: era; PRK00089 395494003849 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 395494003850 G1 box; other site 395494003851 GTP/Mg2+ binding site [chemical binding]; other site 395494003852 Switch I region; other site 395494003853 G2 box; other site 395494003854 Switch II region; other site 395494003855 G3 box; other site 395494003856 G4 box; other site 395494003857 G5 box; other site 395494003858 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 395494003859 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 395494003860 Recombination protein O N terminal; Region: RecO_N; cl15812 395494003861 Recombination protein O C terminal; Region: RecO_C; pfam02565 395494003862 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 the...; Region: PNPsynthase; cd00003 395494003863 active site 395494003864 hydrophilic channel; other site 395494003865 dimerization interface [polypeptide binding]; other site 395494003866 catalytic residues [active] 395494003867 active site lid [active] 395494003868 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 395494003869 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 395494003870 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 395494003871 FtsZ protein binding site [polypeptide binding]; other site 395494003872 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 395494003873 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 395494003874 nucleotide binding pocket [chemical binding]; other site 395494003875 K-X-D-G motif; other site 395494003876 catalytic site [active] 395494003877 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 395494003878 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 395494003879 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 395494003880 Dimer interface [polypeptide binding]; other site 395494003881 BRCT sequence motif; other site 395494003882 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 395494003883 active site 395494003884 tetramer interface; other site 395494003885 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395494003886 active site 395494003887 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 395494003888 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 395494003889 active site 395494003890 catalytic residues [active] 395494003891 metal binding site [ion binding]; metal-binding site 395494003892 Ion channel; Region: Ion_trans_2; cl11596 395494003893 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 395494003894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003895 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 395494003896 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 395494003897 HSP70 interaction site [polypeptide binding]; other site 395494003898 aconitate hydratase; Validated; Region: PRK09277 395494003899 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 395494003900 substrate binding site [chemical binding]; other site 395494003901 ligand binding site [chemical binding]; other site 395494003902 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 395494003903 substrate binding site [chemical binding]; other site 395494003904 potassium uptake protein; Region: kup; TIGR00794 395494003905 K+ potassium transporter; Region: K_trans; cl15781 395494003906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 395494003907 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 395494003908 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 395494003909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 395494003910 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494003911 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 395494003912 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 395494003913 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 395494003914 WYL domain; Region: WYL; cl14852 395494003915 Protein of unknown function DUF262; Region: DUF262; cl14890 395494003916 Protein of unknown function DUF262; Region: DUF262; cl14890 395494003917 HsdM N-terminal domain; Region: HsdM_N; pfam12161 395494003918 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 395494003919 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494003920 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 395494003921 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494003922 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494003923 Abortive infection C-terminus; Region: Abi_C; pfam14355 395494003924 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 395494003925 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 395494003926 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494003927 ATP binding site [chemical binding]; other site 395494003928 putative Mg++ binding site [ion binding]; other site 395494003929 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 395494003930 TIR domain; Region: TIR_2; cl15770 395494003931 TIR domain; Region: TIR_2; cl15770 395494003932 TIR domain; Region: TIR_2; cl15770 395494003933 AAA domain; Region: AAA_22; pfam13401 395494003934 Integrase core domain; Region: rve; cl01316 395494003935 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 395494003936 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 395494003937 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 395494003938 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395494003939 MULE transposase domain; Region: MULE; pfam10551 395494003940 TIR domain; Region: TIR_2; cl15770 395494003941 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494003942 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 395494003943 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 395494003944 binding surface 395494003945 TPR motif; other site 395494003946 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 395494003947 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 395494003948 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 395494003949 homodimer interface [polypeptide binding]; other site 395494003950 NADP binding site [chemical binding]; other site 395494003951 substrate binding site [chemical binding]; other site 395494003952 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 395494003953 dimer interface [polypeptide binding]; other site 395494003954 substrate binding site [chemical binding]; other site 395494003955 metal binding sites [ion binding]; metal-binding site 395494003956 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 395494003957 active site 395494003958 ADP/pyrophosphate binding site [chemical binding]; other site 395494003959 dimerization interface [polypeptide binding]; other site 395494003960 allosteric effector site; other site 395494003961 fructose-1,6-bisphosphate binding site; other site 395494003962 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395494003963 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 395494003964 active site 395494003965 ribonuclease E; Reviewed; Region: rne; PRK10811 395494003966 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 395494003967 homodimer interface [polypeptide binding]; other site 395494003968 oligonucleotide binding site [chemical binding]; other site 395494003969 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 395494003970 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 395494003971 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 395494003972 active site 395494003973 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; cl15754 395494003974 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 395494003975 ligand binding site [chemical binding]; other site 395494003976 flexible hinge region; other site 395494003977 FOG: CBS domain [General function prediction only]; Region: COG0517 395494003978 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 395494003979 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494003980 metal binding site [ion binding]; metal-binding site 395494003981 active site 395494003982 I-site; other site 395494003983 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 395494003984 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 395494003985 motif II; other site 395494003986 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 395494003987 Sm1 motif; other site 395494003988 intra - hexamer interaction site; other site 395494003989 inter - hexamer interaction site [polypeptide binding]; other site 395494003990 nucleotide binding pocket [chemical binding]; other site 395494003991 Sm2 motif; other site 395494003992 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 395494003993 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 395494003994 HflX GTPase family; Region: HflX; cd01878 395494003995 G1 box; other site 395494003996 GTP/Mg2+ binding site [chemical binding]; other site 395494003997 Switch I region; other site 395494003998 G2 box; other site 395494003999 G3 box; other site 395494004000 Switch II region; other site 395494004001 G4 box; other site 395494004002 G5 box; other site 395494004003 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 395494004004 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 395494004005 HflK protein; Region: hflK; TIGR01933 395494004006 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 395494004007 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 395494004008 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 395494004009 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 ATP-dependent...; Region: HisRS-like_core; cd00773 395494004010 dimer interface [polypeptide binding]; other site 395494004011 motif 1; other site 395494004012 active site 395494004013 motif 2; other site 395494004014 motif 3; other site 395494004015 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 395494004016 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 395494004017 GDP-binding site [chemical binding]; other site 395494004018 ACT binding site; other site 395494004019 IMP binding site; other site 395494004020 ribonuclease R; Region: RNase_R; TIGR02063 395494004021 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 395494004022 RNB domain; Region: RNB; pfam00773 395494004023 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 play an important...; Region: S1_RNase_R; cd04471 395494004024 RNA binding site [nucleotide binding]; other site 395494004025 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 395494004026 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 395494004027 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395494004028 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 395494004029 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395494004030 ligand binding site [chemical binding]; other site 395494004031 NAD synthetase; Provisional; Region: PRK13981 395494004032 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 395494004033 multimer interface [polypeptide binding]; other site 395494004034 active site 395494004035 catalytic triad [active] 395494004036 protein interface 1 [polypeptide binding]; other site 395494004037 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 395494004038 homodimer interface [polypeptide binding]; other site 395494004039 NAD binding pocket [chemical binding]; other site 395494004040 ATP binding pocket [chemical binding]; other site 395494004041 Mg binding site [ion binding]; other site 395494004042 active-site loop [active] 395494004043 ribosome maturation protein RimP; Reviewed; Region: PRK00092 395494004044 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 395494004045 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 395494004046 Sm1 motif; other site 395494004047 predicted subunit interaction site [polypeptide binding]; other site 395494004048 RNA binding pocket [nucleotide binding]; other site 395494004049 Sm2 motif; other site 395494004050 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 395494004051 NusA N-terminal domain; Region: NusA_N; pfam08529 395494004052 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 395494004053 RNA binding site [nucleotide binding]; other site 395494004054 homodimer interface [polypeptide binding]; other site 395494004055 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 395494004056 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 395494004057 G-X-X-G motif; other site 395494004058 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 395494004059 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 395494004060 translation initiation factor IF-2; Validated; Region: infB; PRK05306 395494004061 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 395494004062 translation initiation factor IF-2; Region: IF-2; TIGR00487 395494004063 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 395494004064 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 395494004065 G1 box; other site 395494004066 putative GEF interaction site [polypeptide binding]; other site 395494004067 GTP/Mg2+ binding site [chemical binding]; other site 395494004068 Switch I region; other site 395494004069 G2 box; other site 395494004070 G3 box; other site 395494004071 Switch II region; other site 395494004072 G4 box; other site 395494004073 G5 box; other site 395494004074 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 395494004075 Translation-initiation factor 2; Region: IF-2; pfam11987 395494004076 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 395494004077 Ribosome-binding factor A; Region: RBFA; cl00542 395494004078 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 395494004079 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 395494004080 RNA binding site [nucleotide binding]; other site 395494004081 active site 395494004082 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 395494004083 16S/18S rRNA binding site [nucleotide binding]; other site 395494004084 S13e-L30e interaction site [polypeptide binding]; other site 395494004085 25S rRNA binding site [nucleotide binding]; other site 395494004086 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 395494004087 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 395494004088 RNase E interface [polypeptide binding]; other site 395494004089 trimer interface [polypeptide binding]; other site 395494004090 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 395494004091 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 395494004092 RNase E interface [polypeptide binding]; other site 395494004093 trimer interface [polypeptide binding]; other site 395494004094 active site 395494004095 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 395494004096 putative nucleic acid binding region [nucleotide binding]; other site 395494004097 G-X-X-G motif; other site 395494004098 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 395494004099 RNA binding site [nucleotide binding]; other site 395494004100 domain interface; other site 395494004101 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395494004102 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 395494004103 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 395494004104 SLBB domain; Region: SLBB; pfam10531 395494004105 SLBB domain; Region: SLBB; pfam10531 395494004106 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 395494004107 Chain length determinant protein; Region: Wzz; cl15801 395494004108 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 395494004109 Chain length determinant protein; Region: Wzz; cl15801 395494004110 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 395494004111 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 395494004112 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 395494004113 Substrate binding site; other site 395494004114 Cupin domain; Region: Cupin_2; cl09118 395494004115 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 395494004116 active site 395494004117 NTP binding site [chemical binding]; other site 395494004118 metal binding triad [ion binding]; metal-binding site 395494004119 antibiotic binding site [chemical binding]; other site 395494004120 Protein of unknown function DUF86; Region: DUF86; cl01031 395494004121 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 395494004122 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 395494004123 NADP-binding site; other site 395494004124 homotetramer interface [polypeptide binding]; other site 395494004125 substrate binding site [chemical binding]; other site 395494004126 homodimer interface [polypeptide binding]; other site 395494004127 active site 395494004128 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 395494004129 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 395494004130 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 395494004131 NADP binding site [chemical binding]; other site 395494004132 active site 395494004133 putative substrate binding site [chemical binding]; other site 395494004134 MatE; Region: MatE; cl10513 395494004135 MviN-like protein; Region: MVIN; pfam03023 395494004136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004137 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 395494004138 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 395494004139 NADP-binding site; other site 395494004140 homotetramer interface [polypeptide binding]; other site 395494004141 substrate binding site [chemical binding]; other site 395494004142 homodimer interface [polypeptide binding]; other site 395494004143 active site 395494004144 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 395494004145 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395494004146 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 395494004147 metal-binding site 395494004148 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 395494004149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004150 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 395494004151 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395494004152 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 395494004153 putative ADP-binding pocket [chemical binding]; other site 395494004154 OpgC protein; Region: OpgC_C; cl00792 395494004155 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395494004156 putative acyl transferase; Provisional; Region: PRK10502 395494004157 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 395494004158 putative trimer interface [polypeptide binding]; other site 395494004159 putative active site [active] 395494004160 putative substrate binding site [chemical binding]; other site 395494004161 putative CoA binding site [chemical binding]; other site 395494004162 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395494004163 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 395494004164 S-adenosylmethionine binding site [chemical binding]; other site 395494004165 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 395494004166 putative metal binding site; other site 395494004167 putative glycosyl transferase; Provisional; Region: PRK10307 395494004168 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 395494004169 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 395494004170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004171 Bacterial sugar transferase; Region: Bac_transf; cl00939 395494004172 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 395494004173 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 395494004174 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 395494004175 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 395494004176 active site 395494004177 Phospholipid methyltransferase; Region: PEMT; cl00763 395494004178 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 395494004179 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395494004180 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 395494004181 phosphoglycolate phosphatase; Provisional; Region: PRK13222 395494004182 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 395494004183 motif II; other site 395494004184 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 395494004185 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 395494004186 S-adenosylmethionine binding site [chemical binding]; other site 395494004187 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 395494004188 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395494004189 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; cl15306 395494004190 substrate binding pocket [chemical binding]; other site 395494004191 membrane-bound complex binding site; other site 395494004192 hinge residues; other site 395494004193 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 395494004194 putative diguanylate cyclase; Provisional; Region: PRK09776 395494004195 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 395494004196 putative active site [active] 395494004197 heme pocket [chemical binding]; other site 395494004198 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 395494004199 dimer interface [polypeptide binding]; other site 395494004200 phosphorylation site [posttranslational modification] 395494004201 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 395494004202 ATP binding site [chemical binding]; other site 395494004203 Mg2+ binding site [ion binding]; other site 395494004204 G-X-G motif; other site 395494004205 Response regulator receiver domain; Region: Response_reg; pfam00072 395494004206 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494004207 active site 395494004208 phosphorylation site [posttranslational modification] 395494004209 intermolecular recognition site; other site 395494004210 dimerization interface [polypeptide binding]; other site 395494004211 NMT1-like family; Region: NMT1_2; cl15260 395494004212 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395494004213 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 395494004214 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 395494004215 putative active site [active] 395494004216 heme pocket [chemical binding]; other site 395494004217 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 395494004218 dimer interface [polypeptide binding]; other site 395494004219 phosphorylation site [posttranslational modification] 395494004220 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 395494004221 ATP binding site [chemical binding]; other site 395494004222 Mg2+ binding site [ion binding]; other site 395494004223 G-X-G motif; other site 395494004224 Response regulator receiver domain; Region: Response_reg; pfam00072 395494004225 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494004226 active site 395494004227 phosphorylation site [posttranslational modification] 395494004228 intermolecular recognition site; other site 395494004229 dimerization interface [polypeptide binding]; other site 395494004230 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 395494004231 DEAD-like helicases superfamily; Region: DEXDc; smart00487 395494004232 ATP binding site [chemical binding]; other site 395494004233 Mg++ binding site [ion binding]; other site 395494004234 motif III; other site 395494004235 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 395494004236 nucleotide binding region [chemical binding]; other site 395494004237 ATP-binding site [chemical binding]; other site 395494004238 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 395494004239 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 395494004240 active site 395494004241 nucleophile elbow; other site 395494004242 NMT1-like family; Region: NMT1_2; cl15260 395494004243 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395494004244 PAS domain S-box; Region: sensory_box; TIGR00229 395494004245 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 395494004246 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494004247 metal binding site [ion binding]; metal-binding site 395494004248 active site 395494004249 I-site; other site 395494004250 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 395494004251 Cache domain; Region: Cache_2; cl07034 395494004252 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 395494004253 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 395494004254 PAS fold; Region: PAS_4; pfam08448 395494004255 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494004256 dimer interface [polypeptide binding]; other site 395494004257 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395494004258 putative CheW interface [polypeptide binding]; other site 395494004259 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 395494004260 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 395494004261 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 395494004262 putative active site [active] 395494004263 heme pocket [chemical binding]; other site 395494004264 PAS domain S-box; Region: sensory_box; TIGR00229 395494004265 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 395494004266 putative active site [active] 395494004267 heme pocket [chemical binding]; other site 395494004268 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 395494004269 dimer interface [polypeptide binding]; other site 395494004270 phosphorylation site [posttranslational modification] 395494004271 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 395494004272 ATP binding site [chemical binding]; other site 395494004273 Mg2+ binding site [ion binding]; other site 395494004274 G-X-G motif; other site 395494004275 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494004276 Response regulator receiver domain; Region: Response_reg; pfam00072 395494004277 active site 395494004278 phosphorylation site [posttranslational modification] 395494004279 intermolecular recognition site; other site 395494004280 dimerization interface [polypeptide binding]; other site 395494004281 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 395494004282 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494004283 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 395494004284 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 395494004285 metabolite-proton symporter; Region: 2A0106; TIGR00883 395494004286 putative substrate translocation pore; other site 395494004287 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 395494004288 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 395494004289 ATP binding site [chemical binding]; other site 395494004290 Mg2+ binding site [ion binding]; other site 395494004291 G-X-G motif; other site 395494004292 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 395494004293 ATP binding site [chemical binding]; other site 395494004294 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 395494004295 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 395494004296 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 395494004297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004298 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 395494004299 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 395494004300 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 395494004301 aminopeptidase N; Provisional; Region: pepN; PRK14015 395494004302 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 395494004303 active site 395494004304 Zn binding site [ion binding]; other site 395494004305 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 395494004306 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 395494004307 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 395494004308 anchoring element; other site 395494004309 dimer interface [polypeptide binding]; other site 395494004310 ATP binding site [chemical binding]; other site 395494004311 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 395494004312 active site 395494004313 metal binding site [ion binding]; metal-binding site 395494004314 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 395494004315 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 395494004316 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 in DNA...; Region: TOP4c; cd00187 395494004317 CAP-like domain; other site 395494004318 active site 395494004319 primary dimer interface [polypeptide binding]; other site 395494004320 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395494004321 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395494004322 RmuC family; Region: RmuC; pfam02646 395494004323 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395494004324 glucokinase, proteobacterial type; Region: glk; TIGR00749 395494004325 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 395494004326 homodimer interface [polypeptide binding]; other site 395494004327 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 395494004328 active site pocket [active] 395494004329 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 395494004330 putative homodimer interface [polypeptide binding]; other site 395494004331 putative active site pocket [active] 395494004332 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 395494004333 glycogen synthase; Provisional; Region: glgA; PRK00654 395494004334 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 395494004335 ADP-binding pocket [chemical binding]; other site 395494004336 homodimer interface [polypeptide binding]; other site 395494004337 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; cl15754 395494004338 malate dehydrogenase; Provisional; Region: PRK05442 395494004339 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 395494004340 NAD(P) binding site [chemical binding]; other site 395494004341 dimer interface [polypeptide binding]; other site 395494004342 malate binding site [chemical binding]; other site 395494004343 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 395494004344 Iron-sulfur protein interface; other site 395494004345 proximal quinone binding site [chemical binding]; other site 395494004346 SdhD (CybS) interface [polypeptide binding]; other site 395494004347 proximal heme binding site [chemical binding]; other site 395494004348 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 395494004349 SdhC subunit interface [polypeptide binding]; other site 395494004350 proximal heme binding site [chemical binding]; other site 395494004351 cardiolipin binding site; other site 395494004352 Iron-sulfur protein interface; other site 395494004353 proximal quinone binding site [chemical binding]; other site 395494004354 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 395494004355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004356 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395494004357 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 395494004358 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; cl00159 395494004359 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 395494004360 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 395494004361 dimer interface [polypeptide binding]; other site 395494004362 Citrate synthase; Region: Citrate_synt; pfam00285 395494004363 active site 395494004364 citrylCoA binding site [chemical binding]; other site 395494004365 NADH binding [chemical binding]; other site 395494004366 cationic pore residues; other site 395494004367 oxalacetate/citrate binding site [chemical binding]; other site 395494004368 coenzyme A binding site [chemical binding]; other site 395494004369 catalytic triad [active] 395494004370 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 395494004371 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 395494004372 TPP-binding site [chemical binding]; other site 395494004373 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 395494004374 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 395494004375 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 395494004376 E3 interaction surface; other site 395494004377 lipoyl attachment site [posttranslational modification]; other site 395494004378 e3 binding domain; Region: E3_binding; pfam02817 395494004379 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 395494004380 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 395494004381 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 395494004382 NADP binding site [chemical binding]; other site 395494004383 dimer interface [polypeptide binding]; other site 395494004384 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395494004385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004386 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 395494004387 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 395494004388 RNA/DNA hybrid binding site [nucleotide binding]; other site 395494004389 active site 395494004390 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 395494004391 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 395494004392 active site 395494004393 substrate binding site [chemical binding]; other site 395494004394 catalytic site [active] 395494004395 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 395494004396 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395494004397 HI0933-like protein; Region: HI0933_like; pfam03486 395494004398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004400 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 395494004401 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 395494004402 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395494004403 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 395494004404 YokU-like protein; Region: YokU; cl15819 395494004405 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494004406 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 395494004407 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 395494004408 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 395494004409 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395494004410 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 395494004411 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 395494004412 G1 box; other site 395494004413 putative GEF interaction site [polypeptide binding]; other site 395494004414 GTP/Mg2+ binding site [chemical binding]; other site 395494004415 Switch I region; other site 395494004416 G2 box; other site 395494004417 G3 box; other site 395494004418 Switch II region; other site 395494004419 G4 box; other site 395494004420 G5 box; other site 395494004421 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 395494004422 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 395494004423 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 395494004424 CPxP motif; other site 395494004425 putative inner membrane protein; Provisional; Region: PRK11099 395494004426 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 395494004427 IHF dimer interface [polypeptide binding]; other site 395494004428 IHF - DNA interface [nucleotide binding]; other site 395494004429 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 395494004430 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 395494004431 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 395494004432 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 395494004433 ligand binding site; other site 395494004434 oligomer interface; other site 395494004435 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 395494004436 dimer interface [polypeptide binding]; other site 395494004437 N-terminal domain interface [polypeptide binding]; other site 395494004438 sulfate 1 binding site; other site 395494004439 glycogen branching enzyme; Provisional; Region: PRK05402 395494004440 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 395494004441 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 395494004442 active site 395494004443 catalytic site [active] 395494004444 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 395494004445 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 395494004446 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 395494004447 active site 395494004448 dimer interface [polypeptide binding]; other site 395494004449 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 395494004450 dimer interface [polypeptide binding]; other site 395494004451 active site 395494004452 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 395494004453 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 395494004454 Walker A/P-loop; other site 395494004455 ATP binding site [chemical binding]; other site 395494004456 Q-loop/lid; other site 395494004457 ABC transporter signature motif; other site 395494004458 Walker B; other site 395494004459 D-loop; other site 395494004460 H-loop/switch region; other site 395494004461 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 395494004462 dimer interface [polypeptide binding]; other site 395494004463 phosphorylation site [posttranslational modification] 395494004464 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 395494004465 ATP binding site [chemical binding]; other site 395494004466 Mg2+ binding site [ion binding]; other site 395494004467 G-X-G motif; other site 395494004468 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395494004469 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 395494004470 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 protein; Region: CSP_CDS; cd04458 395494004471 DNA-binding site [nucleotide binding]; DNA binding site 395494004472 RNA-binding motif; other site 395494004473 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395494004474 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 395494004475 putative dimer interface [polypeptide binding]; other site 395494004476 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395494004477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494004478 active site 395494004479 phosphorylation site [posttranslational modification] 395494004480 intermolecular recognition site; other site 395494004481 dimerization interface [polypeptide binding]; other site 395494004482 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 395494004483 DNA binding residues [nucleotide binding] 395494004484 dimerization interface [polypeptide binding]; other site 395494004485 PAS domain; Region: PAS_9; pfam13426 395494004486 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 395494004487 PAS fold; Region: PAS_3; pfam08447 395494004488 putative active site [active] 395494004489 heme pocket [chemical binding]; other site 395494004490 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 395494004491 PAS fold; Region: PAS_4; pfam08448 395494004492 PAS domain S-box; Region: sensory_box; TIGR00229 395494004493 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 395494004494 putative active site [active] 395494004495 heme pocket [chemical binding]; other site 395494004496 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 395494004497 Histidine kinase; Region: HisKA_3; pfam07730 395494004498 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 395494004499 ATP binding site [chemical binding]; other site 395494004500 Mg2+ binding site [ion binding]; other site 395494004501 G-X-G motif; other site 395494004502 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 395494004503 PAS domain; Region: PAS_9; pfam13426 395494004504 putative active site [active] 395494004505 heme pocket [chemical binding]; other site 395494004506 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 395494004507 putative active site [active] 395494004508 heme pocket [chemical binding]; other site 395494004509 diguanylate cyclase; Provisional; Region: PRK09894 395494004510 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494004511 metal binding site [ion binding]; metal-binding site 395494004512 active site 395494004513 I-site; other site 395494004514 CheB methylesterase; Region: CheB_methylest; pfam01339 395494004515 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 395494004516 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395494004517 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004518 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395494004519 Protein of unknown function (DUF904); Region: DUF904; cl11531 395494004520 PAS domain; Region: PAS_10; pfam13596 395494004521 PAS domain; Region: PAS_9; pfam13426 395494004522 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 395494004523 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 395494004524 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 395494004525 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004526 CoA-ligase; Region: Ligase_CoA; cl02894 395494004527 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395494004528 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395494004529 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395494004530 Helix-turn-helix domains; Region: HTH; cl00088 395494004531 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395494004532 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 395494004533 putative effector binding pocket; other site 395494004534 dimerization interface [polypeptide binding]; other site 395494004535 Pirin-related protein [General function prediction only]; Region: COG1741 395494004536 Cupin domain; Region: Cupin_2; cl09118 395494004537 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 395494004538 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 395494004539 YceI-like domain; Region: YceI; cl01001 395494004540 YceI-like domain; Region: YceI; cl01001 395494004541 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 395494004542 FMN binding site [chemical binding]; other site 395494004543 active site 395494004544 substrate binding site [chemical binding]; other site 395494004545 catalytic residue [active] 395494004546 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 395494004547 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 395494004548 active site 395494004549 substrate binding site [chemical binding]; other site 395494004550 metal binding site [ion binding]; metal-binding site 395494004551 GTP-binding protein Der; Reviewed; Region: PRK00093 395494004552 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 395494004553 G1 box; other site 395494004554 GTP/Mg2+ binding site [chemical binding]; other site 395494004555 Switch I region; other site 395494004556 G2 box; other site 395494004557 Switch II region; other site 395494004558 G3 box; other site 395494004559 G4 box; other site 395494004560 G5 box; other site 395494004561 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 395494004562 G1 box; other site 395494004563 GTP/Mg2+ binding site [chemical binding]; other site 395494004564 Switch I region; other site 395494004565 G2 box; other site 395494004566 G3 box; other site 395494004567 Switch II region; other site 395494004568 G4 box; other site 395494004569 G5 box; other site 395494004570 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 395494004571 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 395494004572 Trp docking motif [polypeptide binding]; other site 395494004573 active site 395494004574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 395494004575 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 395494004576 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 395494004577 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 ATP-dependent...; Region: HisRS-like_core; cd00773 395494004578 dimer interface [polypeptide binding]; other site 395494004579 motif 1; other site 395494004580 active site 395494004581 motif 2; other site 395494004582 motif 3; other site 395494004583 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 395494004584 anticodon binding site; other site 395494004585 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 395494004586 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 395494004587 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 395494004588 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 395494004589 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395494004590 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 395494004591 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 395494004592 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 395494004593 TPR motif; other site 395494004594 binding surface 395494004595 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 395494004596 binding surface 395494004597 TPR motif; other site 395494004598 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 395494004599 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 395494004600 FeS/SAM binding site; other site 395494004601 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 395494004602 active site 395494004603 multimer interface [polypeptide binding]; other site 395494004604 Sel1 repeat; Region: Sel1; cl02723 395494004605 Sel1 repeat; Region: Sel1; cl02723 395494004606 Sel1 repeat; Region: Sel1; cl02723 395494004607 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 395494004608 TilS substrate binding domain; Region: TilS; pfam09179 395494004609 B3/4 domain; Region: B3_4; cl11458 395494004610 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 395494004611 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 395494004612 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 395494004613 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395494004614 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 395494004615 ligand binding site [chemical binding]; other site 395494004616 flexible hinge region; other site 395494004617 Sulfatase; Region: Sulfatase; cl10460 395494004618 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 395494004619 aromatic arch; other site 395494004620 DCoH dimer interaction site [polypeptide binding]; other site 395494004621 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 395494004622 DCoH tetramer interaction site [polypeptide binding]; other site 395494004623 substrate binding site [chemical binding]; other site 395494004624 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 395494004625 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 395494004626 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 395494004627 heme binding site [chemical binding]; other site 395494004628 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 395494004629 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 395494004630 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 395494004631 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 395494004632 ATP binding site [chemical binding]; other site 395494004633 putative Mg++ binding site [ion binding]; other site 395494004634 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 395494004635 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494004636 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494004637 Virulence protein [General function prediction only]; Region: COG3943 395494004638 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 395494004639 HsdM N-terminal domain; Region: HsdM_N; pfam12161 395494004640 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 395494004641 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004642 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395494004643 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 395494004644 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 395494004645 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395494004646 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 395494004647 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 395494004648 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 395494004649 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 395494004650 DNA binding site [nucleotide binding] 395494004651 Int/Topo IB signature motif; other site 395494004652 active site 395494004653 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494004654 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395494004655 TIR domain; Region: TIR_2; cl15770 395494004656 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 395494004657 Superfamily II helicase [General function prediction only]; Region: COG1204 395494004658 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 395494004659 ATP binding site [chemical binding]; other site 395494004660 putative Mg++ binding site [ion binding]; other site 395494004661 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 395494004662 nucleotide binding region [chemical binding]; other site 395494004663 ATP-binding site [chemical binding]; other site 395494004664 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 395494004665 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494004666 Family description; Region: UvrD_C_2; cl15862 395494004667 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395494004668 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 395494004669 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 395494004670 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 395494004671 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 395494004672 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395494004673 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494004674 Walker A/P-loop; other site 395494004675 ATP binding site [chemical binding]; other site 395494004676 Q-loop/lid; other site 395494004677 ABC transporter signature motif; other site 395494004678 Walker B; other site 395494004679 D-loop; other site 395494004680 H-loop/switch region; other site 395494004681 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395494004682 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 395494004683 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395494004684 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 395494004685 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395494004686 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 395494004687 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 395494004688 Cadherin repeat-like domain; Region: CA_like; cl15786 395494004689 Cadherin repeat-like domain; Region: CA_like; cl15786 395494004690 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 395494004691 Ca2+ binding site [ion binding]; other site 395494004692 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 395494004693 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 395494004694 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 395494004695 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395494004696 RTX toxin acyltransferase family; Region: HlyC; cl01131 395494004697 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395494004698 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 395494004699 DNA binding residues [nucleotide binding] 395494004700 dimerization interface [polypeptide binding]; other site 395494004701 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395494004702 non-specific DNA binding site [nucleotide binding]; other site 395494004703 salt bridge; other site 395494004704 sequence-specific DNA binding site [nucleotide binding]; other site 395494004705 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395494004706 Restriction endonuclease; Region: Mrr_cat; cl00516 395494004707 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 395494004708 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 395494004709 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 395494004710 non-specific DNA binding site [nucleotide binding]; other site 395494004711 salt bridge; other site 395494004712 sequence-specific DNA binding site [nucleotide binding]; other site 395494004713 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 395494004714 Sel1 repeat; Region: Sel1; cl02723 395494004715 Sel1 repeat; Region: Sel1; cl02723 395494004716 Sel1 repeat; Region: Sel1; cl02723 395494004717 Sel1 repeat; Region: Sel1; cl02723 395494004718 Sel1 repeat; Region: Sel1; cl02723 395494004719 Short C-terminal domain; Region: SHOCT; cl01373 395494004720 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 395494004721 non-specific DNA binding site [nucleotide binding]; other site 395494004722 salt bridge; other site 395494004723 sequence-specific DNA binding site [nucleotide binding]; other site 395494004724 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 395494004725 DNA binding site [nucleotide binding] 395494004726 Int/Topo IB signature motif; other site 395494004727 active site 395494004728 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 395494004729 IHF dimer interface [polypeptide binding]; other site 395494004730 IHF - DNA interface [nucleotide binding]; other site 395494004731 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 395494004732 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 395494004733 Zeta toxin; Region: Zeta_toxin; pfam06414 395494004734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494004735 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 395494004736 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 395494004737 active site 395494004738 interdomain interaction site; other site 395494004739 putative metal-binding site [ion binding]; other site 395494004740 nucleotide binding site [chemical binding]; other site 395494004741 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 395494004742 domain I; other site 395494004743 DNA binding groove [nucleotide binding] 395494004744 phosphate binding site [ion binding]; other site 395494004745 domain II; other site 395494004746 domain III; other site 395494004747 nucleotide binding site [chemical binding]; other site 395494004748 catalytic site [active] 395494004749 domain IV; other site 395494004750 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 395494004751 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 395494004752 catalytic residues [active] 395494004753 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 395494004754 putative FMN binding site [chemical binding]; other site 395494004755 Helix-turn-helix domains; Region: HTH; cl00088 395494004756 transcriptional activator TtdR; Provisional; Region: PRK09801 395494004757 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 395494004758 putative effector binding pocket; other site 395494004759 dimerization interface [polypeptide binding]; other site 395494004760 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395494004761 Helix-turn-helix domains; Region: HTH; cl00088 395494004762 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 395494004763 putative effector binding pocket; other site 395494004764 dimerization interface [polypeptide binding]; other site 395494004765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004767 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 395494004768 YceI-like domain; Region: YceI; cl01001 395494004769 YceI-like domain; Region: YceI; cl01001 395494004770 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; cl09108 395494004771 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 395494004772 TIR domain; Region: TIR_2; cl15770 395494004773 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 395494004774 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 395494004775 IHF dimer interface [polypeptide binding]; other site 395494004776 IHF - DNA interface [nucleotide binding]; other site 395494004777 TIR domain; Region: TIR_2; cl15770 395494004778 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 395494004779 DNA binding site [nucleotide binding] 395494004780 Int/Topo IB signature motif; other site 395494004781 active site 395494004782 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 395494004783 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 395494004784 P-loop; other site 395494004785 Magnesium ion binding site [ion binding]; other site 395494004786 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 395494004787 DNA binding site [nucleotide binding] 395494004788 Int/Topo IB signature motif; other site 395494004789 active site 395494004790 catalytic residues [active] 395494004791 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 395494004792 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 395494004793 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395494004794 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395494004795 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 395494004796 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 395494004797 inhibitor-cofactor binding pocket; inhibition site 395494004798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494004799 catalytic residue [active] 395494004800 Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16; Region: ACE1-Sec16-like; cl14807 395494004801 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 395494004802 DNA binding site [nucleotide binding] 395494004803 Int/Topo IB signature motif; other site 395494004804 active site 395494004805 integrase; Provisional; Region: int; PHA02601 395494004806 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 395494004807 DNA binding site [nucleotide binding] 395494004808 Int/Topo IB signature motif; other site 395494004809 active site 395494004810 Antirestriction protein (ArdA); Region: ArdA; cl01953 395494004811 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 395494004812 HipA N-terminal domain; Region: Couple_hipA; cl11853 395494004813 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 395494004814 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395494004815 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395494004816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004817 TIGR02687 family protein; Region: TIGR02687 395494004818 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 395494004819 Putative ATP-dependent Lon protease; Region: Lon_2; cl11979 395494004820 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 395494004821 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 395494004822 AAA-like domain; Region: AAA_10; pfam12846 395494004823 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 395494004824 AAA domain; Region: AAA_25; pfam13481 395494004825 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494004826 Walker B motif; other site 395494004827 Uncharacterized conserved protein [Function unknown]; Region: COG4938 395494004828 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 395494004829 Protein of unknown function DUF262; Region: DUF262; cl14890 395494004830 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395494004831 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 395494004832 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 395494004833 GIY-YIG motif/motif A; other site 395494004834 active site 395494004835 catalytic site [active] 395494004836 putative DNA binding site [nucleotide binding]; other site 395494004837 metal binding site [ion binding]; metal-binding site 395494004838 UvrB/uvrC motif; Region: UVR; pfam02151 395494004839 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 395494004840 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 395494004841 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395494004842 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 395494004843 substrate binding site [chemical binding]; other site 395494004844 dimer interface [polypeptide binding]; other site 395494004845 ATP binding site [chemical binding]; other site 395494004846 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 395494004847 dimerization interface [polypeptide binding]; other site 395494004848 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494004849 metal binding site [ion binding]; metal-binding site 395494004850 active site 395494004851 I-site; other site 395494004852 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 395494004853 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395494004854 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395494004855 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; cl00284 395494004856 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 395494004857 PAS domain; Region: PAS_9; pfam13426 395494004858 putative active site [active] 395494004859 heme pocket [chemical binding]; other site 395494004860 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494004861 metal binding site [ion binding]; metal-binding site 395494004862 active site 395494004863 I-site; other site 395494004864 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 395494004865 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395494004866 ligand binding site [chemical binding]; other site 395494004867 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395494004868 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 395494004869 NAD(P) binding site [chemical binding]; other site 395494004870 homotetramer interface [polypeptide binding]; other site 395494004871 homodimer interface [polypeptide binding]; other site 395494004872 active site 395494004873 Acyl transferase domain; Region: Acyl_transf_1; cl08282 395494004874 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 395494004875 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 395494004876 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 395494004877 dimer interface [polypeptide binding]; other site 395494004878 active site 395494004879 CoA binding pocket [chemical binding]; other site 395494004880 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 395494004881 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 395494004882 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 395494004883 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 395494004884 active site 395494004885 dimer interface [polypeptide binding]; other site 395494004886 Predicted methyltransferases [General function prediction only]; Region: COG0313 395494004887 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 395494004888 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 395494004889 putative ligand binding pocket/active site [active] 395494004890 putative metal binding site [ion binding]; other site 395494004891 AMMECR1; Region: AMMECR1; cl00911 395494004892 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 395494004893 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 395494004894 FeS/SAM binding site; other site 395494004895 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 395494004896 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 395494004897 ATP binding site [chemical binding]; other site 395494004898 putative Mg++ binding site [ion binding]; other site 395494004899 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 395494004900 nucleotide binding region [chemical binding]; other site 395494004901 ATP-binding site [chemical binding]; other site 395494004902 RQC domain; Region: RQC; cl09632 395494004903 HRDC domain; Region: HRDC; cl02578 395494004904 HDOD domain; Region: HDOD; pfam08668 395494004905 AAA domain; Region: AAA_32; pfam13654 395494004906 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 395494004907 Sel1 repeat; Region: Sel1; cl02723 395494004908 Sel1 repeat; Region: Sel1; cl02723 395494004909 Sel1 repeat; Region: Sel1; cl02723 395494004910 Sel1 repeat; Region: Sel1; cl02723 395494004911 Sporulation related domain; Region: SPOR; cl10051 395494004912 Sel1 repeat; Region: Sel1; cl02723 395494004913 Sel1 repeat; Region: Sel1; cl02723 395494004914 Sel1 repeat; Region: Sel1; cl02723 395494004915 Sel1 repeat; Region: Sel1; cl02723 395494004916 Sporulation related domain; Region: SPOR; cl10051 395494004917 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 395494004918 dimerization interface [polypeptide binding]; other site 395494004919 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 395494004920 ATP binding site [chemical binding]; other site 395494004921 Hydrogenase formation hypA family; Region: HypD; cl12072 395494004922 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 395494004923 HupF/HypC family; Region: HupF_HypC; cl00394 395494004924 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 395494004925 active site 395494004926 ADP/pyrophosphate binding site [chemical binding]; other site 395494004927 dimerization interface [polypeptide binding]; other site 395494004928 allosteric effector site; other site 395494004929 fructose-1,6-bisphosphate binding site; other site 395494004930 Acylphosphatase; Region: Acylphosphatase; cl00551 395494004931 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 395494004932 HypF finger; Region: zf-HYPF; pfam07503 395494004933 HypF finger; Region: zf-HYPF; pfam07503 395494004934 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 395494004935 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494004936 Spore Coat Protein U domain; Region: SCPU; cl02253 395494004937 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 395494004938 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 395494004939 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 395494004940 PapC C-terminal domain; Region: PapC_C; pfam13953 395494004941 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 395494004942 Spore Coat Protein U domain; Region: SCPU; cl02253 395494004943 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 395494004944 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 395494004945 HupE / UreJ protein; Region: HupE_UreJ; cl01011 395494004946 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 395494004947 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395494004948 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 395494004949 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 395494004950 SLBB domain; Region: SLBB; pfam10531 395494004951 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 395494004952 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 395494004953 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 395494004954 catalytic loop [active] 395494004955 iron binding site [ion binding]; other site 395494004956 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 395494004957 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 395494004958 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 395494004959 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 395494004960 nickel binding site [ion binding]; other site 395494004961 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 395494004962 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 395494004963 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 395494004964 hypothetical protein; Provisional; Region: PRK10396 395494004965 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 395494004966 SEC-C motif; Region: SEC-C; pfam02810 395494004967 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 395494004968 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 395494004969 N-terminal plug; other site 395494004970 ligand-binding site [chemical binding]; other site 395494004971 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 395494004972 ScpA/B protein; Region: ScpA_ScpB; cl00598 395494004973 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 395494004974 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 395494004975 active site 395494004976 HIGH motif; other site 395494004977 dimer interface [polypeptide binding]; other site 395494004978 KMSKS motif; other site 395494004979 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 395494004980 active site 395494004981 putative substrate binding region [chemical binding]; other site 395494004982 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 395494004983 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 395494004984 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 395494004985 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 395494004986 putative coenzyme Q binding site [chemical binding]; other site 395494004987 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 395494004988 SmpB-tmRNA interface; other site 395494004989 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 395494004990 siroheme synthase; Provisional; Region: cysG; PRK10637 395494004991 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494004992 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 395494004993 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 395494004994 HPP family; Region: HPP; pfam04982 395494004995 cyanophycin synthetase; Provisional; Region: PRK14016 395494004996 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395494004997 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395494004998 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395494004999 cyanophycin synthetase; Provisional; Region: PRK14016 395494005000 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395494005001 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395494005002 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395494005003 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 395494005004 Walker A/P-loop; other site 395494005005 ATP binding site [chemical binding]; other site 395494005006 Q-loop/lid; other site 395494005007 ABC transporter signature motif; other site 395494005008 Walker B; other site 395494005009 D-loop; other site 395494005010 H-loop/switch region; other site 395494005011 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 395494005012 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 395494005013 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 395494005014 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 395494005015 Protein of unknown function (DUF524); Region: DUF524; pfam04411 395494005016 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 395494005017 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 395494005018 putative active site [active] 395494005019 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 395494005020 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 395494005021 active site 395494005022 HIGH motif; other site 395494005023 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 395494005024 active site 395494005025 KMSKS motif; other site 395494005026 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005027 metal binding site [ion binding]; metal-binding site 395494005028 active site 395494005029 I-site; other site 395494005030 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 395494005031 HDOD domain; Region: HDOD; pfam08668 395494005032 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 395494005033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494005034 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 395494005035 ligand binding site [chemical binding]; other site 395494005036 flexible hinge region; other site 395494005037 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 395494005038 ligand binding site [chemical binding]; other site 395494005039 flexible hinge region; other site 395494005040 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 395494005041 4Fe-4S binding domain; Region: Fer4; cl02805 395494005042 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; cl00062 395494005043 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 395494005044 heme-binding residues [chemical binding]; other site 395494005045 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 395494005046 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005047 metal binding site [ion binding]; metal-binding site 395494005048 active site 395494005049 I-site; other site 395494005050 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 395494005051 SurA N-terminal domain; Region: SurA_N_3; cl07813 395494005052 periplasmic folding chaperone; Provisional; Region: PRK10788 395494005053 PPIC-type PPIASE domain; Region: Rotamase; cl08278 395494005054 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 395494005055 IHF dimer interface [polypeptide binding]; other site 395494005056 IHF - DNA interface [nucleotide binding]; other site 395494005057 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 395494005058 Found in ATP-dependent protease La (LON); Region: LON; smart00464 395494005059 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 395494005060 Walker A motif; other site 395494005061 ATP binding site [chemical binding]; other site 395494005062 Walker B motif; other site 395494005063 arginine finger; other site 395494005064 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 395494005065 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 395494005066 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 395494005067 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 395494005068 Walker A motif; other site 395494005069 ATP binding site [chemical binding]; other site 395494005070 Walker B motif; other site 395494005071 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 395494005072 Clp protease; Region: CLP_protease; pfam00574 395494005073 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 395494005074 oligomer interface [polypeptide binding]; other site 395494005075 active site residues [active] 395494005076 trigger factor; Provisional; Region: tig; PRK01490 395494005077 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 395494005078 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 395494005079 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494005080 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005081 active site 395494005082 phosphorylation site [posttranslational modification] 395494005083 intermolecular recognition site; other site 395494005084 dimerization interface [polypeptide binding]; other site 395494005085 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 395494005086 putative active site [active] 395494005087 PAS fold; Region: PAS_3; pfam08447 395494005088 heme pocket [chemical binding]; other site 395494005089 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 395494005090 PAS domain; Region: PAS_9; pfam13426 395494005091 putative active site [active] 395494005092 heme pocket [chemical binding]; other site 395494005093 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005094 metal binding site [ion binding]; metal-binding site 395494005095 active site 395494005096 I-site; other site 395494005097 PAS fold; Region: PAS_3; pfam08447 395494005098 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395494005099 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 395494005100 PAS domain; Region: PAS_9; pfam13426 395494005101 putative active site [active] 395494005102 heme pocket [chemical binding]; other site 395494005103 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 395494005104 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 395494005105 ATP binding site [chemical binding]; other site 395494005106 Mg2+ binding site [ion binding]; other site 395494005107 G-X-G motif; other site 395494005108 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 395494005109 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 395494005110 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 395494005111 B12 binding site [chemical binding]; other site 395494005112 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 395494005113 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 395494005114 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; cl00159 395494005115 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 395494005116 Response regulator receiver domain; Region: Response_reg; pfam00072 395494005117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005118 active site 395494005119 phosphorylation site [posttranslational modification] 395494005120 intermolecular recognition site; other site 395494005121 dimerization interface [polypeptide binding]; other site 395494005122 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 395494005123 PAS fold; Region: PAS_4; pfam08448 395494005124 PAS domain S-box; Region: sensory_box; TIGR00229 395494005125 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 395494005126 putative active site [active] 395494005127 heme pocket [chemical binding]; other site 395494005128 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 395494005129 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494005130 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 395494005131 dimer interface [polypeptide binding]; other site 395494005132 phosphorylation site [posttranslational modification] 395494005133 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 395494005134 ATP binding site [chemical binding]; other site 395494005135 Mg2+ binding site [ion binding]; other site 395494005136 G-X-G motif; other site 395494005137 Response regulator receiver domain; Region: Response_reg; pfam00072 395494005138 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005139 active site 395494005140 phosphorylation site [posttranslational modification] 395494005141 intermolecular recognition site; other site 395494005142 dimerization interface [polypeptide binding]; other site 395494005143 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 395494005144 PAS fold; Region: PAS_3; pfam08447 395494005145 putative active site [active] 395494005146 heme pocket [chemical binding]; other site 395494005147 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 395494005148 PAS domain; Region: PAS_9; pfam13426 395494005149 putative active site [active] 395494005150 heme pocket [chemical binding]; other site 395494005151 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005152 metal binding site [ion binding]; metal-binding site 395494005153 active site 395494005154 I-site; other site 395494005155 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 395494005156 SapC; Region: SapC; pfam07277 395494005157 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 395494005158 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 395494005159 PAS domain; Region: PAS_9; pfam13426 395494005160 putative active site [active] 395494005161 heme pocket [chemical binding]; other site 395494005162 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005163 metal binding site [ion binding]; metal-binding site 395494005164 active site 395494005165 I-site; other site 395494005166 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 395494005167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005168 response regulator; Provisional; Region: PRK09483 395494005169 active site 395494005170 phosphorylation site [posttranslational modification] 395494005171 intermolecular recognition site; other site 395494005172 dimerization interface [polypeptide binding]; other site 395494005173 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 395494005174 DNA binding residues [nucleotide binding] 395494005175 Response regulator receiver domain; Region: Response_reg; pfam00072 395494005176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005177 active site 395494005178 phosphorylation site [posttranslational modification] 395494005179 intermolecular recognition site; other site 395494005180 dimerization interface [polypeptide binding]; other site 395494005181 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 395494005182 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 395494005183 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 395494005184 FeS/SAM binding site; other site 395494005185 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 395494005186 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 395494005187 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 395494005188 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 395494005189 putative active site [active] 395494005190 metal binding site [ion binding]; metal-binding site 395494005191 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 395494005192 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 395494005193 DHH family; Region: DHH; pfam01368 395494005194 DHHA1 domain; Region: DHHA1; pfam02272 395494005195 aspartate kinase; Reviewed; Region: PRK06635 395494005196 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 395494005197 putative nucleotide binding site [chemical binding]; other site 395494005198 putative catalytic residues [active] 395494005199 putative Mg ion binding site [ion binding]; other site 395494005200 putative aspartate binding site [chemical binding]; other site 395494005201 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 395494005202 putative allosteric regulatory site; other site 395494005203 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 395494005204 putative allosteric regulatory residue; other site 395494005205 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 395494005206 Site-specific recombinase; Region: SpecificRecomb; cl15411 395494005207 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494005208 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 395494005209 dimerization interface [polypeptide binding]; other site 395494005210 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 395494005211 dimer interface [polypeptide binding]; other site 395494005212 phosphorylation site [posttranslational modification] 395494005213 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 395494005214 ATP binding site [chemical binding]; other site 395494005215 Mg2+ binding site [ion binding]; other site 395494005216 G-X-G motif; other site 395494005217 response regulator GlrR; Provisional; Region: PRK15115 395494005218 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005219 active site 395494005220 phosphorylation site [posttranslational modification] 395494005221 intermolecular recognition site; other site 395494005222 dimerization interface [polypeptide binding]; other site 395494005223 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 395494005224 Walker A motif; other site 395494005225 ATP binding site [chemical binding]; other site 395494005226 Walker B motif; other site 395494005227 arginine finger; other site 395494005228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494005229 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 395494005230 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 395494005231 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494005232 Zeta toxin; Region: Zeta_toxin; pfam06414 395494005233 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 395494005234 catalytic residues [active] 395494005235 catalytic nucleophile [active] 395494005236 Recombinase; Region: Recombinase; pfam07508 395494005237 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 395494005238 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 395494005239 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 395494005240 TIGR01777 family protein; Region: yfcH 395494005241 putative NAD(P) binding site [chemical binding]; other site 395494005242 putative active site [active] 395494005243 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494005244 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494005245 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494005246 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 395494005247 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 395494005248 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395494005249 FtsX-like permease family; Region: FtsX; cl15850 395494005250 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 395494005251 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395494005252 Walker A/P-loop; other site 395494005253 ATP binding site [chemical binding]; other site 395494005254 Q-loop/lid; other site 395494005255 ABC transporter signature motif; other site 395494005256 Walker B; other site 395494005257 D-loop; other site 395494005258 H-loop/switch region; other site 395494005259 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 395494005260 ComEC family competence protein; Provisional; Region: PRK11539 395494005261 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 395494005262 Competence protein; Region: Competence; cl00471 395494005263 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395494005264 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 395494005265 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395494005266 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 395494005267 NlpC/P60 family; Region: NLPC_P60; cl11438 395494005268 Transglycosylase SLT domain; Region: SLT_2; pfam13406 395494005269 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 catalyze...; Region: LT_GEWL; cd00254 395494005270 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395494005271 thioredoxin reductase; Provisional; Region: PRK10262 395494005272 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494005273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 395494005274 Smr domain; Region: Smr; cl02619 395494005275 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 395494005276 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 395494005277 dimer interface [polypeptide binding]; other site 395494005278 phosphorylation site [posttranslational modification] 395494005279 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 395494005280 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 395494005281 ATP binding site [chemical binding]; other site 395494005282 Mg2+ binding site [ion binding]; other site 395494005283 G-X-G motif; other site 395494005284 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 395494005285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005286 active site 395494005287 phosphorylation site [posttranslational modification] 395494005288 intermolecular recognition site; other site 395494005289 dimerization interface [polypeptide binding]; other site 395494005290 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 395494005291 DNA binding site [nucleotide binding] 395494005292 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 395494005293 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 395494005294 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395494005295 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395494005296 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494005297 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494005298 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 395494005299 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395494005300 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395494005301 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 395494005302 Walker A/P-loop; other site 395494005303 ATP binding site [chemical binding]; other site 395494005304 Q-loop/lid; other site 395494005305 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 395494005306 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 395494005307 Q-loop/lid; other site 395494005308 ABC transporter signature motif; other site 395494005309 Walker B; other site 395494005310 D-loop; other site 395494005311 H-loop/switch region; other site 395494005312 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 395494005313 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 395494005314 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 395494005315 selenophosphate synthetase; Provisional; Region: PRK00943 395494005316 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 395494005317 dimerization interface [polypeptide binding]; other site 395494005318 putative ATP binding site [chemical binding]; other site 395494005319 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 395494005320 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 395494005321 active site residue [active] 395494005322 Predicted ATPase [General function prediction only]; Region: COG1485 395494005323 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395494005324 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 395494005325 dimer interface [polypeptide binding]; other site 395494005326 putative metal binding site [ion binding]; other site 395494005327 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 395494005328 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395494005329 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395494005330 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 395494005331 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 395494005332 putative active site; other site 395494005333 catalytic residue [active] 395494005334 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 395494005335 dimerization interface [polypeptide binding]; other site 395494005336 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 395494005337 PAS domain; Region: PAS_9; pfam13426 395494005338 putative active site [active] 395494005339 heme pocket [chemical binding]; other site 395494005340 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005341 metal binding site [ion binding]; metal-binding site 395494005342 active site 395494005343 I-site; other site 395494005344 HDOD domain; Region: HDOD; pfam08668 395494005345 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494005346 Zn2+ binding site [ion binding]; other site 395494005347 Mg2+ binding site [ion binding]; other site 395494005348 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395494005349 EamA-like transporter family; Region: EamA; cl01037 395494005350 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 395494005351 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 395494005352 dimer interface [polypeptide binding]; other site 395494005353 conserved gate region; other site 395494005354 ABC-ATPase subunit interface; other site 395494005355 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 395494005356 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 395494005357 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 395494005358 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494005359 Walker A/P-loop; other site 395494005360 ATP binding site [chemical binding]; other site 395494005361 Q-loop/lid; other site 395494005362 ABC transporter signature motif; other site 395494005363 Walker B; other site 395494005364 D-loop; other site 395494005365 H-loop/switch region; other site 395494005366 NMT1-like family; Region: NMT1_2; cl15260 395494005367 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395494005368 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 395494005369 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 395494005370 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 395494005371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494005372 homodimer interface [polypeptide binding]; other site 395494005373 catalytic residue [active] 395494005374 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 395494005375 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 395494005376 trimer interface [polypeptide binding]; other site 395494005377 active site 395494005378 substrate binding site [chemical binding]; other site 395494005379 CoA binding site [chemical binding]; other site 395494005380 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 395494005381 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494005382 Walker A motif; other site 395494005383 ATP binding site [chemical binding]; other site 395494005384 Walker B motif; other site 395494005385 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 395494005386 ArsC family; Region: ArsC; pfam03960 395494005387 putative catalytic residues [active] 395494005388 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 395494005389 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 395494005390 metal binding site [ion binding]; metal-binding site 395494005391 dimer interface [polypeptide binding]; other site 395494005392 HemK family putative methylases; Region: hemK_fam; TIGR00536 395494005393 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 395494005394 S-adenosylmethionine binding site [chemical binding]; other site 395494005395 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 395494005396 active site lid residues [active] 395494005397 substrate binding pocket [chemical binding]; other site 395494005398 catalytic residues [active] 395494005399 substrate-Mg2+ binding site; other site 395494005400 aspartate-rich region 1; other site 395494005401 aspartate-rich region 2; other site 395494005402 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 395494005403 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 395494005404 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 395494005405 active site lid residues [active] 395494005406 substrate binding pocket [chemical binding]; other site 395494005407 catalytic residues [active] 395494005408 substrate-Mg2+ binding site; other site 395494005409 aspartate-rich region 1; other site 395494005410 aspartate-rich region 2; other site 395494005411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494005412 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 395494005413 hypothetical protein; Provisional; Region: PRK06132 395494005414 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 395494005415 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 395494005416 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 395494005417 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 395494005418 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 395494005419 dimer interface [polypeptide binding]; other site 395494005420 putative anticodon binding site; other site 395494005421 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 395494005422 motif 1; other site 395494005423 active site 395494005424 motif 2; other site 395494005425 motif 3; other site 395494005426 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395494005427 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 395494005428 ligand binding site [chemical binding]; other site 395494005429 flexible hinge region; other site 395494005430 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 395494005431 putative switch regulator; other site 395494005432 non-specific DNA interactions [nucleotide binding]; other site 395494005433 DNA binding site [nucleotide binding] 395494005434 sequence specific DNA binding site [nucleotide binding]; other site 395494005435 putative cAMP binding site [chemical binding]; other site 395494005436 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 395494005437 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395494005438 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395494005439 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 395494005440 metal-binding site [ion binding] 395494005441 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494005442 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494005443 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 395494005444 ligand binding site [chemical binding]; other site 395494005445 active site 395494005446 UGI interface [polypeptide binding]; other site 395494005447 catalytic site [active] 395494005448 Uncharacterized conserved protein [Function unknown]; Region: COG3025 395494005449 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 395494005450 putative active site [active] 395494005451 putative metal binding residues [ion binding]; other site 395494005452 signature motif; other site 395494005453 putative triphosphate binding site [ion binding]; other site 395494005454 CHAD domain; Region: CHAD; cl10506 395494005455 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 395494005456 putative active site [active] 395494005457 helicase 45; Provisional; Region: PTZ00424 395494005458 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 395494005459 ATP binding site [chemical binding]; other site 395494005460 Mg++ binding site [ion binding]; other site 395494005461 motif III; other site 395494005462 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 395494005463 nucleotide binding region [chemical binding]; other site 395494005464 ATP-binding site [chemical binding]; other site 395494005465 Gram-negative bacterial tonB protein; Region: TonB; cl10048 395494005466 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 395494005467 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 395494005468 N-terminal plug; other site 395494005469 ligand-binding site [chemical binding]; other site 395494005470 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 395494005471 dimerization interface [polypeptide binding]; other site 395494005472 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 395494005473 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395494005474 Cytochrome c; Region: Cytochrom_C; cl11414 395494005475 Sulfate transporter family; Region: Sulfate_transp; cl15842 395494005476 high affinity sulphate transporter 1; Region: sulP; TIGR00815 395494005477 Sulfate transporter family; Region: Sulfate_transp; cl15842 395494005478 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 395494005479 peptide chain release factor 2; Validated; Region: prfB; PRK00578 395494005480 RF-1 domain; Region: RF-1; cl02875 395494005481 RF-1 domain; Region: RF-1; cl02875 395494005482 HDOD domain; Region: HDOD; pfam08668 395494005483 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 395494005484 homodimer interface [polypeptide binding]; other site 395494005485 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 395494005486 active site pocket [active] 395494005487 putative phosphoketolase; Provisional; Region: PRK05261 395494005488 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 395494005489 TPP-binding site; other site 395494005490 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 395494005491 XFP C-terminal domain; Region: XFP_C; pfam09363 395494005492 Acetokinase family; Region: Acetate_kinase; cl01029 395494005493 propionate/acetate kinase; Provisional; Region: PRK12379 395494005494 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395494005495 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494005496 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 395494005497 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 395494005498 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395494005499 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395494005500 Walker A/P-loop; other site 395494005501 ATP binding site [chemical binding]; other site 395494005502 Q-loop/lid; other site 395494005503 ABC transporter signature motif; other site 395494005504 Walker B; other site 395494005505 D-loop; other site 395494005506 H-loop/switch region; other site 395494005507 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395494005508 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 395494005509 FtsX-like permease family; Region: FtsX; cl15850 395494005510 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 395494005511 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 395494005512 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 395494005513 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 395494005514 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 395494005515 binding surface 395494005516 TPR motif; other site 395494005517 Cytochrome C biogenesis protein; Region: CcmH; cl01179 395494005518 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 395494005519 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 395494005520 catalytic residues [active] 395494005521 central insert; other site 395494005522 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 395494005523 CcmE; Region: CcmE; cl00994 395494005524 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 395494005525 CcmB protein; Region: CcmB; cl01016 395494005526 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 395494005527 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494005528 Walker A/P-loop; other site 395494005529 ATP binding site [chemical binding]; other site 395494005530 Q-loop/lid; other site 395494005531 ABC transporter signature motif; other site 395494005532 Walker B; other site 395494005533 D-loop; other site 395494005534 H-loop/switch region; other site 395494005535 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 395494005536 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 395494005537 NAD binding site [chemical binding]; other site 395494005538 homotetramer interface [polypeptide binding]; other site 395494005539 homodimer interface [polypeptide binding]; other site 395494005540 substrate binding site [chemical binding]; other site 395494005541 active site 395494005542 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 395494005543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005544 active site 395494005545 phosphorylation site [posttranslational modification] 395494005546 intermolecular recognition site; other site 395494005547 dimerization interface [polypeptide binding]; other site 395494005548 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 395494005549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494005550 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 395494005551 ATP binding site [chemical binding]; other site 395494005552 Mg2+ binding site [ion binding]; other site 395494005553 G-X-G motif; other site 395494005554 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005555 Response regulator receiver domain; Region: Response_reg; pfam00072 395494005556 active site 395494005557 phosphorylation site [posttranslational modification] 395494005558 intermolecular recognition site; other site 395494005559 dimerization interface [polypeptide binding]; other site 395494005560 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 395494005561 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 395494005562 RNA/DNA hybrid binding site [nucleotide binding]; other site 395494005563 active site 395494005564 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 395494005565 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 395494005566 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 395494005567 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 395494005568 active site 395494005569 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 395494005570 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 395494005571 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 395494005572 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 395494005573 trimer interface [polypeptide binding]; other site 395494005574 active site 395494005575 UDP-GlcNAc binding site [chemical binding]; other site 395494005576 lipid binding site [chemical binding]; lipid-binding site 395494005577 periplasmic chaperone; Provisional; Region: PRK10780 395494005578 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 395494005579 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 395494005580 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395494005581 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395494005582 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395494005583 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395494005584 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 395494005585 Surface antigen; Region: Bac_surface_Ag; cl03097 395494005586 zinc metallopeptidase RseP; Provisional; Region: PRK10779 395494005587 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 395494005588 active site 395494005589 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 395494005590 protein binding site [polypeptide binding]; other site 395494005591 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 395494005592 protein binding site [polypeptide binding]; other site 395494005593 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 395494005594 putative substrate binding region [chemical binding]; other site 395494005595 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 395494005596 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 395494005597 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 395494005598 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 395494005599 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 395494005600 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 395494005601 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 395494005602 catalytic residue [active] 395494005603 putative FPP diphosphate binding site; other site 395494005604 putative FPP binding hydrophobic cleft; other site 395494005605 dimer interface [polypeptide binding]; other site 395494005606 putative IPP diphosphate binding site; other site 395494005607 ribosome recycling factor; Reviewed; Region: frr; PRK00083 395494005608 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 round of...; Region: RRF; cd00520 395494005609 hinge region; other site 395494005610 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 395494005611 putative nucleotide binding site [chemical binding]; other site 395494005612 uridine monophosphate binding site [chemical binding]; other site 395494005613 homohexameric interface [polypeptide binding]; other site 395494005614 elongation factor Ts; Provisional; Region: tsf; PRK09377 395494005615 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 395494005616 Elongation factor TS; Region: EF_TS; pfam00889 395494005617 Elongation factor TS; Region: EF_TS; pfam00889 395494005618 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 395494005619 rRNA interaction site [nucleotide binding]; other site 395494005620 S8 interaction site; other site 395494005621 putative laminin-1 binding site; other site 395494005622 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 395494005623 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 395494005624 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 395494005625 Walker A motif; other site 395494005626 ATP binding site [chemical binding]; other site 395494005627 Walker B motif; other site 395494005628 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 395494005629 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 395494005630 FMN binding site [chemical binding]; other site 395494005631 active site 395494005632 catalytic residues [active] 395494005633 substrate binding site [chemical binding]; other site 395494005634 multiple promoter invertase; Provisional; Region: mpi; PRK13413 395494005635 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 395494005636 catalytic residues [active] 395494005637 catalytic nucleophile [active] 395494005638 Presynaptic Site I dimer interface [polypeptide binding]; other site 395494005639 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 395494005640 Synaptic Flat tetramer interface [polypeptide binding]; other site 395494005641 Synaptic Site I dimer interface [polypeptide binding]; other site 395494005642 DNA binding site [nucleotide binding] 395494005643 Helix-turn-helix domains; Region: HTH; cl00088 395494005644 DNA-binding interface [nucleotide binding]; DNA binding site 395494005645 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 395494005646 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395494005647 Integrase core domain; Region: rve; cl01316 395494005648 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 395494005649 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395494005650 Helix-turn-helix domains; Region: HTH; cl00088 395494005651 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 395494005652 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 395494005653 active site 395494005654 catalytic tetrad [active] 395494005655 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 395494005656 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005657 metal binding site [ion binding]; metal-binding site 395494005658 active site 395494005659 I-site; other site 395494005660 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494005661 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494005662 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494005663 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 395494005664 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395494005665 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 395494005666 Clp amino terminal domain; Region: Clp_N; pfam02861 395494005667 Clp amino terminal domain; Region: Clp_N; pfam02861 395494005668 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 395494005669 Walker A motif; other site 395494005670 ATP binding site [chemical binding]; other site 395494005671 Walker B motif; other site 395494005672 arginine finger; other site 395494005673 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 395494005674 Walker A motif; other site 395494005675 ATP binding site [chemical binding]; other site 395494005676 Walker B motif; other site 395494005677 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 395494005678 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 395494005679 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 395494005680 dimerization interface [polypeptide binding]; other site 395494005681 active site 395494005682 thioredoxin 2; Provisional; Region: PRK10996 395494005683 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 395494005684 catalytic residues [active] 395494005685 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395494005686 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494005687 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 395494005688 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 395494005689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494005690 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 395494005691 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 395494005692 synthetase active site [active] 395494005693 NTP binding site [chemical binding]; other site 395494005694 metal binding site [ion binding]; metal-binding site 395494005695 Membrane transport protein; Region: Mem_trans; cl09117 395494005696 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 395494005697 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, cyanobacteria; Region: Thr-synth_2; cd01560 395494005698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494005699 catalytic residue [active] 395494005700 homoserine dehydrogenase; Provisional; Region: PRK06349 395494005701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494005702 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 395494005703 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 395494005704 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 395494005705 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 395494005706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494005707 homodimer interface [polypeptide binding]; other site 395494005708 catalytic residue [active] 395494005709 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 395494005710 MoxR-like ATPases [General function prediction only]; Region: COG0714 395494005711 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 395494005712 Walker A motif; other site 395494005713 ATP binding site [chemical binding]; other site 395494005714 Walker B motif; other site 395494005715 arginine finger; other site 395494005716 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 395494005717 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 395494005718 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 395494005719 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 395494005720 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 395494005721 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 395494005722 active site 395494005723 integrase; Provisional; Region: PRK09692 395494005724 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 395494005725 active site 395494005726 Int/Topo IB signature motif; other site 395494005727 FRG domain; Region: FRG; cl07460 395494005728 Sel1 repeat; Region: Sel1; cl02723 395494005729 Sel1 repeat; Region: Sel1; cl02723 395494005730 Sel1 repeat; Region: Sel1; cl02723 395494005731 Sel1 repeat; Region: Sel1; cl02723 395494005732 Sel1 repeat; Region: Sel1; cl02723 395494005733 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 395494005734 non-specific DNA binding site [nucleotide binding]; other site 395494005735 salt bridge; other site 395494005736 sequence-specific DNA binding site [nucleotide binding]; other site 395494005737 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395494005738 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 395494005739 Helix-turn-helix domains; Region: HTH; cl00088 395494005740 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395494005741 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395494005742 FliW protein; Region: FliW; cl00740 395494005743 YccA-like proteins; Region: YccA_like; cd10433 395494005744 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 395494005745 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 395494005746 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 includes...; Region: RuvC_resolvase; cl00243 395494005747 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 395494005748 RNA binding site [nucleotide binding]; other site 395494005749 gliding motility-associated protein GldC; Region: GldC; TIGR03515 395494005750 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 395494005751 PAS domain S-box; Region: sensory_box; TIGR00229 395494005752 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 395494005753 putative active site [active] 395494005754 heme pocket [chemical binding]; other site 395494005755 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005756 metal binding site [ion binding]; metal-binding site 395494005757 active site 395494005758 I-site; other site 395494005759 Response regulator receiver domain; Region: Response_reg; pfam00072 395494005760 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005761 active site 395494005762 phosphorylation site [posttranslational modification] 395494005763 intermolecular recognition site; other site 395494005764 dimerization interface [polypeptide binding]; other site 395494005765 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 395494005766 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 395494005767 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 395494005768 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 395494005769 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 395494005770 putative active site [active] 395494005771 heme pocket [chemical binding]; other site 395494005772 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 395494005773 dimer interface [polypeptide binding]; other site 395494005774 phosphorylation site [posttranslational modification] 395494005775 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 395494005776 ATP binding site [chemical binding]; other site 395494005777 Mg2+ binding site [ion binding]; other site 395494005778 G-X-G motif; other site 395494005779 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395494005780 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 395494005781 TRAM domain; Region: TRAM; cl01282 395494005782 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 395494005783 S-adenosylmethionine binding site [chemical binding]; other site 395494005784 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 395494005785 active site 395494005786 catalytic site [active] 395494005787 substrate binding site [chemical binding]; other site 395494005788 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 395494005789 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395494005790 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 395494005791 CrcB-like protein; Region: CRCB; cl09114 395494005792 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 395494005793 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 395494005794 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 395494005795 dimer interface [polypeptide binding]; other site 395494005796 active site 395494005797 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 395494005798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494005799 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395494005800 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 395494005801 substrate binding site [chemical binding]; other site 395494005802 oxyanion hole (OAH) forming residues; other site 395494005803 trimer interface [polypeptide binding]; other site 395494005804 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 395494005805 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 395494005806 AMP-binding enzyme; Region: AMP-binding; cl15778 395494005807 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 395494005808 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 395494005809 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 395494005810 active site 395494005811 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 395494005812 DNA repair protein RadA; Provisional; Region: PRK11823 395494005813 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 395494005814 Walker A motif/ATP binding site; other site 395494005815 ATP binding site [chemical binding]; other site 395494005816 Walker B motif; other site 395494005817 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 395494005818 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 395494005819 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494005820 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494005821 NMT1/THI5 like; Region: NMT1; pfam09084 395494005822 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395494005823 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 395494005824 substrate binding pocket [chemical binding]; other site 395494005825 membrane-bound complex binding site; other site 395494005826 hinge residues; other site 395494005827 PAS domain S-box; Region: sensory_box; TIGR00229 395494005828 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 395494005829 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 395494005830 PAS domain; Region: PAS_9; pfam13426 395494005831 putative active site [active] 395494005832 heme pocket [chemical binding]; other site 395494005833 PAS domain S-box; Region: sensory_box; TIGR00229 395494005834 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 395494005835 putative active site [active] 395494005836 heme pocket [chemical binding]; other site 395494005837 PAS domain S-box; Region: sensory_box; TIGR00229 395494005838 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 395494005839 putative active site [active] 395494005840 heme pocket [chemical binding]; other site 395494005841 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005842 metal binding site [ion binding]; metal-binding site 395494005843 active site 395494005844 I-site; other site 395494005845 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 395494005846 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 395494005847 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 395494005848 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 395494005849 DctM-like transporters; Region: DctM; pfam06808 395494005850 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 395494005851 PAS fold; Region: PAS_3; pfam08447 395494005852 putative active site [active] 395494005853 heme pocket [chemical binding]; other site 395494005854 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005855 metal binding site [ion binding]; metal-binding site 395494005856 active site 395494005857 I-site; other site 395494005858 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 395494005859 GIY-YIG motif/motif A; other site 395494005860 putative active site [active] 395494005861 putative metal binding site [ion binding]; other site 395494005862 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 395494005863 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 395494005864 putative active site [active] 395494005865 catalytic triad [active] 395494005866 putative dimer interface [polypeptide binding]; other site 395494005867 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395494005868 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 395494005869 RNA binding surface [nucleotide binding]; other site 395494005870 PSSA_1: Pseudouridine synthase, a subgroup of the RsuA family. This group is comprised of bacterial proteins assigned to the RsuA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSSA_1; cd02555 395494005871 active site 395494005872 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 395494005873 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 395494005874 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395494005875 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494005876 dimer interface [polypeptide binding]; other site 395494005877 putative CheW interface [polypeptide binding]; other site 395494005878 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 395494005879 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 395494005880 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 395494005881 dimerization interface [polypeptide binding]; other site 395494005882 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 395494005883 PAS domain; Region: PAS_9; pfam13426 395494005884 putative active site [active] 395494005885 heme pocket [chemical binding]; other site 395494005886 PAS domain S-box; Region: sensory_box; TIGR00229 395494005887 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 395494005888 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005889 metal binding site [ion binding]; metal-binding site 395494005890 active site 395494005891 I-site; other site 395494005892 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 395494005893 Response regulator receiver domain; Region: Response_reg; pfam00072 395494005894 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494005895 active site 395494005896 phosphorylation site [posttranslational modification] 395494005897 intermolecular recognition site; other site 395494005898 dimerization interface [polypeptide binding]; other site 395494005899 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494005900 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494005901 dimer interface [polypeptide binding]; other site 395494005902 putative CheW interface [polypeptide binding]; other site 395494005903 PAS domain S-box; Region: sensory_box; TIGR00229 395494005904 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 395494005905 putative active site [active] 395494005906 heme pocket [chemical binding]; other site 395494005907 PAS domain S-box; Region: sensory_box; TIGR00229 395494005908 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494005909 metal binding site [ion binding]; metal-binding site 395494005910 active site 395494005911 I-site; other site 395494005912 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 395494005913 PAS fold; Region: PAS_3; pfam08447 395494005914 PAS fold; Region: PAS_4; pfam08448 395494005915 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 395494005916 putative active site [active] 395494005917 heme pocket [chemical binding]; other site 395494005918 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 395494005919 PAS fold; Region: PAS_3; pfam08447 395494005920 putative active site [active] 395494005921 heme pocket [chemical binding]; other site 395494005922 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 395494005923 DNA binding residues [nucleotide binding] 395494005924 dimerization interface [polypeptide binding]; other site 395494005925 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494005926 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494005927 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494005928 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 395494005929 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395494005930 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494005931 Zn2+ binding site [ion binding]; other site 395494005932 Mg2+ binding site [ion binding]; other site 395494005933 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395494005934 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 395494005935 catalytic residues [active] 395494005936 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 395494005937 putative inner membrane protein; Provisional; Region: PRK11099 395494005938 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 395494005939 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 395494005940 DNA binding residues [nucleotide binding] 395494005941 dimer interface [polypeptide binding]; other site 395494005942 mercury binding site [ion binding]; other site 395494005943 MerT mercuric transport protein; Region: MerT; cl03578 395494005944 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 395494005945 metal-binding site [ion binding] 395494005946 Membrane transport protein MerF; Region: Transport_MerF; pfam11431 395494005947 putative mercuric reductase; Provisional; Region: PRK13748 395494005948 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494005949 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395494005950 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 395494005951 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 395494005952 Phosphate transporter family; Region: PHO4; cl00396 395494005953 Phosphate transporter family; Region: PHO4; cl00396 395494005954 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395494005955 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 395494005956 S-adenosylmethionine binding site [chemical binding]; other site 395494005957 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 395494005958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494005959 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 395494005960 putative active site [active] 395494005961 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395494005962 glucokinase, proteobacterial type; Region: glk; TIGR00749 395494005963 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 395494005964 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 395494005965 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 395494005966 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 395494005967 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 395494005968 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 395494005969 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 395494005970 transaldolase-like protein; Provisional; Region: PTZ00411 395494005971 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 395494005972 active site 395494005973 dimer interface [polypeptide binding]; other site 395494005974 catalytic residue [active] 395494005975 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 395494005976 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395494005977 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 395494005978 Probable Catalytic site; other site 395494005979 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 395494005980 mercuric reductase; Validated; Region: PRK06370 395494005981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494005982 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494005983 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395494005984 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 395494005985 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 395494005986 FeS/SAM binding site; other site 395494005987 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 395494005988 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 395494005989 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395494005990 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 395494005991 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395494005992 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 395494005993 dimer interface [polypeptide binding]; other site 395494005994 conserved gate region; other site 395494005995 putative PBP binding loops; other site 395494005996 ABC-ATPase subunit interface; other site 395494005997 sulfate transport protein; Provisional; Region: cysT; CHL00187 395494005998 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 395494005999 dimer interface [polypeptide binding]; other site 395494006000 conserved gate region; other site 395494006001 putative PBP binding loops; other site 395494006002 ABC-ATPase subunit interface; other site 395494006003 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 395494006004 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 395494006005 Walker A/P-loop; other site 395494006006 ATP binding site [chemical binding]; other site 395494006007 Q-loop/lid; other site 395494006008 ABC transporter signature motif; other site 395494006009 Walker B; other site 395494006010 D-loop; other site 395494006011 H-loop/switch region; other site 395494006012 TOBE-like domain; Region: TOBE_3; pfam12857 395494006013 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 395494006014 Helix-turn-helix domains; Region: HTH; cl00088 395494006015 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 395494006016 substrate binding site [chemical binding]; other site 395494006017 dimerization interface [polypeptide binding]; other site 395494006018 Putative zinc-finger; Region: zf-HC2; cl15806 395494006019 RNA polymerase sigma factor; Provisional; Region: PRK12544 395494006020 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395494006021 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395494006022 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 395494006023 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 395494006024 Cupin domain; Region: Cupin_2; cl09118 395494006025 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395494006026 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395494006027 Uncharacterized conserved protein [Function unknown]; Region: COG2128 395494006028 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395494006029 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 395494006030 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 395494006031 putative catalytic residues [active] 395494006032 Domain of unknown function (DUF427); Region: DUF427; cl00998 395494006033 TIGR03440 family protein; Region: unchr_TIGR03440 395494006034 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 395494006035 probable methyltransferase; Region: TIGR03438 395494006036 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 395494006037 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395494006038 EamA-like transporter family; Region: EamA; cl01037 395494006039 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 395494006040 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 395494006041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494006042 homodimer interface [polypeptide binding]; other site 395494006043 catalytic residue [active] 395494006044 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 395494006045 non-specific DNA binding site [nucleotide binding]; other site 395494006046 salt bridge; other site 395494006047 sequence-specific DNA binding site [nucleotide binding]; other site 395494006048 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 395494006049 DNA binding site [nucleotide binding] 395494006050 Int/Topo IB signature motif; other site 395494006051 active site 395494006052 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 395494006053 IHF dimer interface [polypeptide binding]; other site 395494006054 IHF - DNA interface [nucleotide binding]; other site 395494006055 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 395494006056 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 395494006057 active site 395494006058 interdomain interaction site; other site 395494006059 putative metal-binding site [ion binding]; other site 395494006060 nucleotide binding site [chemical binding]; other site 395494006061 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 395494006062 domain I; other site 395494006063 DNA binding groove [nucleotide binding] 395494006064 phosphate binding site [ion binding]; other site 395494006065 domain II; other site 395494006066 domain III; other site 395494006067 nucleotide binding site [chemical binding]; other site 395494006068 catalytic site [active] 395494006069 domain IV; other site 395494006070 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 395494006071 DNA binding site [nucleotide binding] 395494006072 Int/Topo IB signature motif; other site 395494006073 active site 395494006074 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 395494006075 dimerization interface [polypeptide binding]; other site 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 PAS domain; Region: PAS_9; pfam13426 395494006078 putative active site [active] 395494006079 heme pocket [chemical binding]; other site 395494006080 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006081 metal binding site [ion binding]; metal-binding site 395494006082 active site 395494006083 I-site; other site 395494006084 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 395494006085 replicative DNA helicase; Region: DnaB; TIGR00665 395494006086 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 395494006087 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 395494006088 Walker A motif; other site 395494006089 ATP binding site [chemical binding]; other site 395494006090 Walker B motif; other site 395494006091 DNA binding loops [nucleotide binding] 395494006092 putative diguanylate cyclase; Provisional; Region: PRK09776 395494006093 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494006094 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 395494006095 putative active site [active] 395494006096 heme pocket [chemical binding]; other site 395494006097 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 395494006098 dimer interface [polypeptide binding]; other site 395494006099 phosphorylation site [posttranslational modification] 395494006100 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 395494006101 ATP binding site [chemical binding]; other site 395494006102 Mg2+ binding site [ion binding]; other site 395494006103 G-X-G motif; other site 395494006104 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 395494006105 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 395494006106 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 395494006107 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 395494006108 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 395494006109 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 395494006110 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006111 phosphorylation site [posttranslational modification] 395494006112 intermolecular recognition site; other site 395494006113 CheB methylesterase; Region: CheB_methylest; pfam01339 395494006114 CheD chemotactic sensory transduction; Region: CheD; cl00810 395494006115 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 395494006116 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395494006117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494006118 HDOD domain; Region: HDOD; pfam08668 395494006119 CheD chemotactic sensory transduction; Region: CheD; cl00810 395494006120 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494006121 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 395494006122 PAS fold; Region: PAS_4; pfam08448 395494006123 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 395494006124 putative active site [active] 395494006125 heme pocket [chemical binding]; other site 395494006126 PAS domain S-box; Region: sensory_box; TIGR00229 395494006127 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 395494006128 putative active site [active] 395494006129 heme pocket [chemical binding]; other site 395494006130 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 395494006131 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 395494006132 putative active site [active] 395494006133 heme pocket [chemical binding]; other site 395494006134 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395494006135 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 395494006136 putative active site [active] 395494006137 heme pocket [chemical binding]; other site 395494006138 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 395494006139 putative active site [active] 395494006140 heme pocket [chemical binding]; other site 395494006141 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006142 metal binding site [ion binding]; metal-binding site 395494006143 active site 395494006144 I-site; other site 395494006145 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 395494006146 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 395494006147 putative CheA interaction surface; other site 395494006148 CHASE3 domain; Region: CHASE3; cl05000 395494006149 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395494006150 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 395494006151 dimerization interface [polypeptide binding]; other site 395494006152 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494006153 dimer interface [polypeptide binding]; other site 395494006154 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395494006155 putative CheW interface [polypeptide binding]; other site 395494006156 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 395494006157 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 395494006158 putative binding surface; other site 395494006159 active site 395494006160 P2 response regulator binding domain; Region: P2; pfam07194 395494006161 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395494006162 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 395494006163 ATP binding site [chemical binding]; other site 395494006164 G-X-G motif; other site 395494006165 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 395494006166 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 395494006167 anti sigma factor interaction site; other site 395494006168 regulatory phosphorylation site [posttranslational modification]; other site 395494006169 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494006170 Response regulator receiver domain; Region: Response_reg; pfam00072 395494006171 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006172 active site 395494006173 phosphorylation site [posttranslational modification] 395494006174 intermolecular recognition site; other site 395494006175 dimerization interface [polypeptide binding]; other site 395494006176 sulfate adenylyltransferase, large subunit; Region: CysN; TIGR02034 395494006177 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 395494006178 CysD dimerization site [polypeptide binding]; other site 395494006179 G1 box; other site 395494006180 putative GEF interaction site [polypeptide binding]; other site 395494006181 GTP/Mg2+ binding site [chemical binding]; other site 395494006182 Switch I region; other site 395494006183 G2 box; other site 395494006184 G3 box; other site 395494006185 Switch II region; other site 395494006186 G4 box; other site 395494006187 G5 box; other site 395494006188 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 395494006189 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 395494006190 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 395494006191 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 395494006192 Active Sites [active] 395494006193 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 395494006194 Active Sites [active] 395494006195 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 395494006196 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 395494006197 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395494006198 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395494006199 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395494006200 Bacitracin resistance protein BacA; Region: BacA; cl00858 395494006201 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 395494006202 Helix-turn-helix domains; Region: HTH; cl00088 395494006203 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 395494006204 substrate binding site [chemical binding]; other site 395494006205 dimerization interface [polypeptide binding]; other site 395494006206 Response regulator receiver domain; Region: Response_reg; pfam00072 395494006207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006208 active site 395494006209 phosphorylation site [posttranslational modification] 395494006210 intermolecular recognition site; other site 395494006211 dimerization interface [polypeptide binding]; other site 395494006212 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 395494006213 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 395494006214 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 395494006215 acetylornithine aminotransferase; Provisional; Region: PRK02627 395494006216 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 395494006217 inhibitor-cofactor binding pocket; inhibition site 395494006218 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494006219 catalytic residue [active] 395494006220 ornithine carbamoyltransferase; Provisional; Region: PRK00779 395494006221 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395494006222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494006223 ornithine carbamoyltransferase; Provisional; Region: PRK00779 395494006224 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 395494006225 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 395494006226 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 395494006227 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 395494006228 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 395494006229 ANP binding site [chemical binding]; other site 395494006230 Substrate Binding Site II [chemical binding]; other site 395494006231 Substrate Binding Site I [chemical binding]; other site 395494006232 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 395494006233 Protein of unknown function (DUF520); Region: DUF520; cl00723 395494006234 DJ-1 family protein; Region: not_thiJ; TIGR01383 395494006235 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 395494006236 conserved cys residue [active] 395494006237 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 395494006238 S-adenosylmethionine binding site [chemical binding]; other site 395494006239 OsmC-like protein; Region: OsmC; cl00767 395494006240 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 395494006241 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 395494006242 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 395494006243 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 395494006244 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 395494006245 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 395494006246 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 395494006247 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 395494006248 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 395494006249 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 395494006250 NMT1-like family; Region: NMT1_2; cl15260 395494006251 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395494006252 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 395494006253 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 395494006254 phosphorylation site [posttranslational modification] 395494006255 dimer interface [polypeptide binding]; other site 395494006256 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 395494006257 ATP binding site [chemical binding]; other site 395494006258 Mg2+ binding site [ion binding]; other site 395494006259 G-X-G motif; other site 395494006260 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395494006261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006262 active site 395494006263 phosphorylation site [posttranslational modification] 395494006264 intermolecular recognition site; other site 395494006265 dimerization interface [polypeptide binding]; other site 395494006266 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 395494006267 Walker A motif; other site 395494006268 ATP binding site [chemical binding]; other site 395494006269 Walker B motif; other site 395494006270 arginine finger; other site 395494006271 Helix-turn-helix domains; Region: HTH; cl00088 395494006272 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 395494006273 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 395494006274 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 395494006275 motif II; other site 395494006276 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 395494006277 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 395494006278 active site 395494006279 dimer interface [polypeptide binding]; other site 395494006280 effector binding site; other site 395494006281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494006282 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 395494006283 dimerization interface [polypeptide binding]; other site 395494006284 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 395494006285 dimer interface [polypeptide binding]; other site 395494006286 phosphorylation site [posttranslational modification] 395494006287 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 395494006288 ATP binding site [chemical binding]; other site 395494006289 Mg2+ binding site [ion binding]; other site 395494006290 G-X-G motif; other site 395494006291 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 395494006292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006293 active site 395494006294 phosphorylation site [posttranslational modification] 395494006295 intermolecular recognition site; other site 395494006296 dimerization interface [polypeptide binding]; other site 395494006297 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 395494006298 DNA binding site [nucleotide binding] 395494006299 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 395494006300 dimer interface [polypeptide binding]; other site 395494006301 EF-hand domain pair; Region: EF_hand_5; pfam13499 395494006302 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; cl08302 395494006303 Ca2+-binding protein (EF-Hand superfamily) [Signal transduction mechanisms / Cytoskeleton / Cell division and chromosome partitioning / General function prediction only]; Region: FRQ1; COG5126 395494006304 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 395494006305 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 395494006306 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494006307 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 395494006308 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494006309 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 395494006310 Cation efflux family; Region: Cation_efflux; cl00316 395494006311 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 395494006312 dimer interface [polypeptide binding]; other site 395494006313 FMN binding site [chemical binding]; other site 395494006314 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 395494006315 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395494006316 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 395494006317 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395494006318 Short C-terminal domain; Region: SHOCT; cl01373 395494006319 hypothetical protein; Region: PHA00672 395494006320 replicative DNA helicase; Region: DnaB; TIGR00665 395494006321 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 395494006322 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 395494006323 Walker A motif; other site 395494006324 ATP binding site [chemical binding]; other site 395494006325 Walker B motif; other site 395494006326 DNA binding loops [nucleotide binding] 395494006327 Helix-turn-helix domains; Region: HTH; cl00088 395494006328 Helix-turn-helix domain; Region: HTH_39; pfam14090 395494006329 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395494006330 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395494006331 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395494006332 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 395494006333 integrase; Provisional; Region: PRK09692 395494006334 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 395494006335 active site 395494006336 Int/Topo IB signature motif; other site 395494006337 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 395494006338 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 395494006339 catalytic triad [active] 395494006340 ABC transporter ATPase component; Reviewed; Region: PRK11147 395494006341 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395494006342 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395494006343 ABC transporter; Region: ABC_tran_2; pfam12848 395494006344 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395494006345 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 395494006346 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 395494006347 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395494006348 metal binding triad; other site 395494006349 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395494006350 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395494006351 metal binding triad; other site 395494006352 TIGR02099 family protein; Region: TIGR02099 395494006353 AsmA-like C-terminal region; Region: AsmA_2; cl15864 395494006354 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395494006355 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 395494006356 putative active site [active] 395494006357 catalytic triad [active] 395494006358 dimer interface [polypeptide binding]; other site 395494006359 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 395494006360 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 395494006361 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 395494006362 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 395494006363 active site 395494006364 substrate binding site [chemical binding]; other site 395494006365 Mg2+ binding site [ion binding]; other site 395494006366 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 395494006367 ligand binding site [chemical binding]; other site 395494006368 flexible hinge region; other site 395494006369 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 395494006370 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 395494006371 active site 395494006372 Riboflavin kinase; Region: Flavokinase; cl03312 395494006373 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 395494006374 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395494006375 active site 395494006376 HIGH motif; other site 395494006377 nucleotide binding site [chemical binding]; other site 395494006378 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 395494006379 active site 395494006380 KMSKS motif; other site 395494006381 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 395494006382 tRNA binding surface [nucleotide binding]; other site 395494006383 anticodon binding site; other site 395494006384 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 395494006385 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 395494006386 LytB protein; Region: LYTB; cl00507 395494006387 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 395494006388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494006389 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 395494006390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494006391 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 395494006392 putative FMN binding site [chemical binding]; other site 395494006393 fumarate hydratase; Reviewed; Region: fumC; PRK00485 395494006394 Class II fumarases; Region: Fumarase_classII; cd01362 395494006395 active site 395494006396 tetramer interface [polypeptide binding]; other site 395494006397 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 395494006398 PAS domain; Region: PAS_9; pfam13426 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 PAS domain; Region: PAS_9; pfam13426 395494006403 putative active site [active] 395494006404 heme pocket [chemical binding]; other site 395494006405 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006406 metal binding site [ion binding]; metal-binding site 395494006407 active site 395494006408 I-site; other site 395494006409 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395494006410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006411 active site 395494006412 phosphorylation site [posttranslational modification] 395494006413 intermolecular recognition site; other site 395494006414 dimerization interface [polypeptide binding]; other site 395494006415 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 395494006416 DNA binding residues [nucleotide binding] 395494006417 dimerization interface [polypeptide binding]; other site 395494006418 PAS domain S-box; Region: sensory_box; TIGR00229 395494006419 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 395494006420 putative active site [active] 395494006421 heme pocket [chemical binding]; other site 395494006422 PAS domain S-box; Region: sensory_box; TIGR00229 395494006423 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 395494006424 putative active site [active] 395494006425 heme pocket [chemical binding]; other site 395494006426 GAF domain; Region: GAF; cl15785 395494006427 GAF domain; Region: GAF_2; pfam13185 395494006428 PAS fold; Region: PAS_4; pfam08448 395494006429 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 395494006430 putative active site [active] 395494006431 heme pocket [chemical binding]; other site 395494006432 PAS domain S-box; Region: sensory_box; TIGR00229 395494006433 PAS fold; Region: PAS_4; pfam08448 395494006434 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 395494006435 Histidine kinase; Region: HisKA_3; pfam07730 395494006436 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 395494006437 ATP binding site [chemical binding]; other site 395494006438 Mg2+ binding site [ion binding]; other site 395494006439 G-X-G motif; other site 395494006440 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494006441 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 395494006442 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 395494006443 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395494006444 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395494006445 Walker A/P-loop; other site 395494006446 ATP binding site [chemical binding]; other site 395494006447 Q-loop/lid; other site 395494006448 ABC transporter signature motif; other site 395494006449 Walker B; other site 395494006450 D-loop; other site 395494006451 H-loop/switch region; other site 395494006452 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395494006453 FtsX-like permease family; Region: FtsX; cl15850 395494006454 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395494006455 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 395494006456 CobD/Cbib protein; Region: CobD_Cbib; cl00561 395494006457 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 395494006458 NeuB family; Region: NeuB; cl00496 395494006459 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 395494006460 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 395494006461 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 395494006462 feedback inhibition sensing region; other site 395494006463 homohexameric interface [polypeptide binding]; other site 395494006464 nucleotide binding site [chemical binding]; other site 395494006465 N-acetyl-L-glutamate binding site [chemical binding]; other site 395494006466 Protein of unknown function (DUF461); Region: DUF461; cl01071 395494006467 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 395494006468 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 395494006469 ATP binding site [chemical binding]; other site 395494006470 G-X-G motif; other site 395494006471 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006472 Response regulator receiver domain; Region: Response_reg; pfam00072 395494006473 active site 395494006474 phosphorylation site [posttranslational modification] 395494006475 intermolecular recognition site; other site 395494006476 dimerization interface [polypeptide binding]; other site 395494006477 Helix-turn-helix domains; Region: HTH; cl00088 395494006478 HDOD domain; Region: HDOD; pfam08668 395494006479 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395494006480 HDOD domain; Region: HDOD; pfam08668 395494006481 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 395494006482 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 395494006483 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 395494006484 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395494006485 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 395494006486 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 395494006487 homodimer interface [polypeptide binding]; other site 395494006488 substrate-cofactor binding pocket; other site 395494006489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494006490 catalytic residue [active] 395494006491 Protein of unknown function (DUF493); Region: DUF493; cl01102 395494006492 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 395494006493 lipoyl synthase; Provisional; Region: PRK05481 395494006494 Cytochrome c; Region: Cytochrom_C; cl11414 395494006495 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 395494006496 RNB domain; Region: RNB; pfam00773 395494006497 Exoribonuclease R [Transcription]; Region: VacB; COG0557 395494006498 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 395494006499 Gram-negative bacterial tonB protein; Region: TonB; cl10048 395494006500 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 395494006501 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 395494006502 putative ligand binding site [chemical binding]; other site 395494006503 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 395494006504 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 395494006505 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 395494006506 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 395494006507 shikimate binding site; other site 395494006508 NAD(P) binding site [chemical binding]; other site 395494006509 Transglycosylase; Region: Transgly; cl07896 395494006510 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 395494006511 putative active site [active] 395494006512 heme pocket [chemical binding]; other site 395494006513 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 395494006514 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494006515 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494006516 dimer interface [polypeptide binding]; other site 395494006517 putative CheW interface [polypeptide binding]; other site 395494006518 diaminopimelate decarboxylase; Region: lysA; TIGR01048 395494006519 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 395494006520 active site 395494006521 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395494006522 substrate binding site [chemical binding]; other site 395494006523 catalytic residues [active] 395494006524 dimer interface [polypeptide binding]; other site 395494006525 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 395494006526 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cl00238 395494006527 putative iron binding site [ion binding]; other site 395494006528 Protein of unknown function DUF45; Region: DUF45; cl00636 395494006529 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395494006530 putative acyl-acceptor binding pocket; other site 395494006531 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 395494006532 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 395494006533 active site 395494006534 motif I; other site 395494006535 motif II; other site 395494006536 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 395494006537 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 395494006538 dimer interface [polypeptide binding]; other site 395494006539 motif 1; other site 395494006540 active site 395494006541 motif 2; other site 395494006542 motif 3; other site 395494006543 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 395494006544 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 395494006545 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 395494006546 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 395494006547 FeS/SAM binding site; other site 395494006548 TRAM domain; Region: TRAM; cl01282 395494006549 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 395494006550 hypothetical protein; Provisional; Region: PRK11239 395494006551 Protein of unknown function, DUF480; Region: DUF480; cl01209 395494006552 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 395494006553 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 395494006554 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 395494006555 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 395494006556 RNA binding surface [nucleotide binding]; other site 395494006557 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 395494006558 active site 395494006559 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 395494006560 Tetratricopeptide repeat; Region: TPR_6; pfam13174 395494006561 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 395494006562 nudix motif; other site 395494006563 VacJ like lipoprotein; Region: VacJ; cl01073 395494006564 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 395494006565 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494006566 Peptidase family M48; Region: Peptidase_M48; cl12018 395494006567 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 395494006568 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395494006569 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 395494006570 RNA binding surface [nucleotide binding]; other site 395494006571 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 395494006572 active site 395494006573 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 395494006574 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 395494006575 dimerization interface [polypeptide binding]; other site 395494006576 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 395494006577 PAS domain; Region: PAS_9; pfam13426 395494006578 putative active site [active] 395494006579 heme pocket [chemical binding]; other site 395494006580 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006581 metal binding site [ion binding]; metal-binding site 395494006582 active site 395494006583 I-site; other site 395494006584 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 395494006585 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395494006586 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 395494006587 putative ligand binding site [chemical binding]; other site 395494006588 Sulfate transporter family; Region: Sulfate_transp; cl15842 395494006589 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 395494006590 Sulfate transporter family; Region: Sulfate_transp; cl15842 395494006591 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 395494006592 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 395494006593 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 395494006594 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 395494006595 dimer interface [polypeptide binding]; other site 395494006596 ADP-ribose binding site [chemical binding]; other site 395494006597 active site 395494006598 nudix motif; other site 395494006599 metal binding site [ion binding]; metal-binding site 395494006600 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 395494006601 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395494006602 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 395494006603 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395494006604 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 395494006605 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 395494006606 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395494006607 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 395494006608 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 395494006609 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 395494006610 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 395494006611 4Fe-4S binding domain; Region: Fer4; cl02805 395494006612 4Fe-4S binding domain; Region: Fer4; cl02805 395494006613 NADH dehydrogenase; Region: NADHdh; cl00469 395494006614 NADH dehydrogenase subunit G; Validated; Region: PRK09129 395494006615 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 395494006616 catalytic loop [active] 395494006617 iron binding site [ion binding]; other site 395494006618 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 395494006619 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 395494006620 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; cd02775 395494006621 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 395494006622 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 395494006623 SLBB domain; Region: SLBB; pfam10531 395494006624 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 395494006625 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 395494006626 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 395494006627 putative dimer interface [polypeptide binding]; other site 395494006628 [2Fe-2S] cluster binding site [ion binding]; other site 395494006629 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 395494006630 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 395494006631 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 395494006632 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 395494006633 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 395494006634 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 395494006635 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494006636 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494006637 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494006638 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395494006639 integrase; Provisional; Region: PRK09692 395494006640 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 395494006641 active site 395494006642 Int/Topo IB signature motif; other site 395494006643 Preprotein translocase SecG subunit; Region: SecG; cl09123 395494006644 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 395494006645 substrate binding site [chemical binding]; other site 395494006646 dimer interface [polypeptide binding]; other site 395494006647 catalytic triad [active] 395494006648 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 395494006649 tetramerization interface [polypeptide binding]; other site 395494006650 active site 395494006651 pantoate--beta-alanine ligase; Region: panC; TIGR00018 395494006652 Pantoate-beta-alanine ligase; Region: PanC; cd00560 395494006653 active site 395494006654 ATP-binding site [chemical binding]; other site 395494006655 pantoate-binding site; other site 395494006656 HXXH motif; other site 395494006657 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 395494006658 oligomerization interface [polypeptide binding]; other site 395494006659 active site 395494006660 metal binding site [ion binding]; metal-binding site 395494006661 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 395494006662 catalytic center binding site [active] 395494006663 ATP binding site [chemical binding]; other site 395494006664 poly(A) polymerase; Region: pcnB; TIGR01942 395494006665 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 395494006666 active site 395494006667 NTP binding site [chemical binding]; other site 395494006668 metal binding triad [ion binding]; metal-binding site 395494006669 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 395494006670 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 395494006671 dihydrodipicolinate reductase; Provisional; Region: PRK00048 395494006672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494006673 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 395494006674 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 395494006675 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 395494006676 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 395494006677 Walker A/P-loop; other site 395494006678 ATP binding site [chemical binding]; other site 395494006679 Q-loop/lid; other site 395494006680 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 395494006681 ABC transporter signature motif; other site 395494006682 Walker B; other site 395494006683 D-loop; other site 395494006684 H-loop/switch region; other site 395494006685 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 395494006686 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494006687 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 395494006688 Walker A/P-loop; other site 395494006689 ATP binding site [chemical binding]; other site 395494006690 Q-loop/lid; other site 395494006691 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395494006692 ABC transporter signature motif; other site 395494006693 Walker B; other site 395494006694 D-loop; other site 395494006695 ABC transporter; Region: ABC_tran_2; pfam12848 395494006696 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395494006697 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; cl15754 395494006698 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 395494006699 Flagellin N-methylase; Region: FliB; cl00497 395494006700 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395494006701 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494006702 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 395494006703 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 395494006704 ferrochelatase; Reviewed; Region: hemH; PRK00035 395494006705 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 395494006706 C-terminal domain interface [polypeptide binding]; other site 395494006707 active site 395494006708 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 395494006709 active site 395494006710 N-terminal domain interface [polypeptide binding]; other site 395494006711 cyclase homology domain; Region: CHD; cd07302 395494006712 nucleotidyl binding site; other site 395494006713 metal binding site [ion binding]; metal-binding site 395494006714 dimer interface [polypeptide binding]; other site 395494006715 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 395494006716 Ligand Binding Site [chemical binding]; other site 395494006717 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 395494006718 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 395494006719 PAS domain; Region: PAS_9; pfam13426 395494006720 putative active site [active] 395494006721 heme pocket [chemical binding]; other site 395494006722 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006723 metal binding site [ion binding]; metal-binding site 395494006724 active site 395494006725 I-site; other site 395494006726 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 395494006727 putative active site [active] 395494006728 putative substrate binding site [chemical binding]; other site 395494006729 catalytic site [active] 395494006730 dimer interface [polypeptide binding]; other site 395494006731 Peptidase family M48; Region: Peptidase_M48; cl12018 395494006732 Cytochrome c; Region: Cytochrom_C; cl11414 395494006733 GTPase RsgA; Reviewed; Region: PRK00098 395494006734 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 395494006735 RNA binding site [nucleotide binding]; other site 395494006736 homodimer interface [polypeptide binding]; other site 395494006737 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 395494006738 GTPase/Zn-binding domain interface [polypeptide binding]; other site 395494006739 GTP/Mg2+ binding site [chemical binding]; other site 395494006740 G4 box; other site 395494006741 G5 box; other site 395494006742 G1 box; other site 395494006743 Switch I region; other site 395494006744 G2 box; other site 395494006745 G3 box; other site 395494006746 Switch II region; other site 395494006747 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 395494006748 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494006749 Phosphotransferase enzyme family; Region: APH; pfam01636 395494006750 aspartate aminotransferase; Provisional; Region: PRK05764 395494006751 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 395494006752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494006753 homodimer interface [polypeptide binding]; other site 395494006754 catalytic residue [active] 395494006755 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 395494006756 S-adenosylmethionine binding site [chemical binding]; other site 395494006757 DsrE/DsrF-like family; Region: DrsE; cl00672 395494006758 EamA-like transporter family; Region: EamA; cl01037 395494006759 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395494006760 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 395494006761 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494006762 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494006763 Iron permease FTR1 family; Region: FTR1; cl00475 395494006764 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395494006765 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395494006766 metal binding site 2 [ion binding]; metal-binding site 395494006767 putative DNA binding helix; other site 395494006768 metal binding site 1 [ion binding]; metal-binding site 395494006769 dimer interface [polypeptide binding]; other site 395494006770 structural Zn2+ binding site [ion binding]; other site 395494006771 Domain of unknown function DUF302; Region: DUF302; cl01364 395494006772 Short C-terminal domain; Region: SHOCT; cl01373 395494006773 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395494006774 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494006775 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 395494006776 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 395494006777 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 395494006778 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395494006779 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 395494006780 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395494006781 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 395494006782 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 395494006783 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 395494006784 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 395494006785 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 395494006786 Cupin superfamily protein; Region: Cupin_4; pfam08007 395494006787 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395494006788 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 395494006789 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 395494006790 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 395494006791 dihydrodipicolinate synthase; Region: dapA; TIGR00674 395494006792 dimer interface [polypeptide binding]; other site 395494006793 active site 395494006794 catalytic residue [active] 395494006795 FeoA domain; Region: FeoA; cl00838 395494006796 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 395494006797 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 395494006798 G1 box; other site 395494006799 GTP/Mg2+ binding site [chemical binding]; other site 395494006800 Switch I region; other site 395494006801 G2 box; other site 395494006802 G3 box; other site 395494006803 Switch II region; other site 395494006804 G4 box; other site 395494006805 G5 box; other site 395494006806 Nucleoside recognition; Region: Gate; cl00486 395494006807 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 395494006808 Nucleoside recognition; Region: Gate; cl00486 395494006809 Septum formation initiator; Region: DivIC; cl11433 395494006810 enolase; Provisional; Region: eno; PRK00077 395494006811 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 395494006812 dimer interface [polypeptide binding]; other site 395494006813 metal binding site [ion binding]; metal-binding site 395494006814 substrate binding pocket [chemical binding]; other site 395494006815 NeuB family; Region: NeuB; cl00496 395494006816 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 395494006817 CTP synthetase; Validated; Region: pyrG; PRK05380 395494006818 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 395494006819 Catalytic site [active] 395494006820 active site 395494006821 UTP binding site [chemical binding]; other site 395494006822 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 395494006823 active site 395494006824 putative oxyanion hole; other site 395494006825 catalytic triad [active] 395494006826 acetyl-CoA synthetase; Provisional; Region: PRK00174 395494006827 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 395494006828 AMP-binding enzyme; Region: AMP-binding; cl15778 395494006829 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494006830 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 395494006831 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 catalyze...; Region: LT_GEWL; cd00254 395494006832 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395494006833 catalytic residue [active] 395494006834 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 395494006835 putative peptidoglycan binding site; other site 395494006836 YqjK-like protein; Region: YqjK; pfam13997 395494006837 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 395494006838 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 395494006839 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395494006840 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395494006841 Walker A/P-loop; other site 395494006842 ATP binding site [chemical binding]; other site 395494006843 Q-loop/lid; other site 395494006844 ABC transporter signature motif; other site 395494006845 Walker B; other site 395494006846 D-loop; other site 395494006847 H-loop/switch region; other site 395494006848 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395494006849 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 395494006850 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395494006851 Walker A/P-loop; other site 395494006852 ATP binding site [chemical binding]; other site 395494006853 Q-loop/lid; other site 395494006854 ABC transporter signature motif; other site 395494006855 Walker B; other site 395494006856 D-loop; other site 395494006857 H-loop/switch region; other site 395494006858 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395494006859 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 395494006860 dimer interface [polypeptide binding]; other site 395494006861 conserved gate region; other site 395494006862 putative PBP binding loops; other site 395494006863 ABC-ATPase subunit interface; other site 395494006864 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395494006865 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 395494006866 dimer interface [polypeptide binding]; other site 395494006867 conserved gate region; other site 395494006868 putative PBP binding loops; other site 395494006869 ABC-ATPase subunit interface; other site 395494006870 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 395494006871 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395494006872 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 395494006873 cyclase homology domain; Region: CHD; cd07302 395494006874 nucleotidyl binding site; other site 395494006875 metal binding site [ion binding]; metal-binding site 395494006876 dimer interface [polypeptide binding]; other site 395494006877 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 395494006878 octamerization interface [polypeptide binding]; other site 395494006879 diferric-oxygen binding site [ion binding]; other site 395494006880 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 395494006881 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 395494006882 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395494006883 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 395494006884 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395494006885 Coenzyme A binding pocket [chemical binding]; other site 395494006886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 395494006887 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395494006888 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 395494006889 nucleoside/Zn binding site; other site 395494006890 dimer interface [polypeptide binding]; other site 395494006891 catalytic motif [active] 395494006892 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006893 Response regulator receiver domain; Region: Response_reg; pfam00072 395494006894 active site 395494006895 phosphorylation site [posttranslational modification] 395494006896 intermolecular recognition site; other site 395494006897 dimerization interface [polypeptide binding]; other site 395494006898 Chemotaxis phosphatase CheX; Region: CheX; cl15816 395494006899 Chemotaxis phosphatase CheX; Region: CheX; cl15816 395494006900 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 395494006901 PAS fold; Region: PAS_4; pfam08448 395494006902 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494006903 metal binding site [ion binding]; metal-binding site 395494006904 active site 395494006905 I-site; other site 395494006906 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 395494006907 catalytic triad [active] 395494006908 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 395494006909 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 395494006910 putative active site [active] 395494006911 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494006912 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 395494006913 SelR domain; Region: SelR; pfam01641 395494006914 Intracellular septation protein A; Region: IspA; cl01098 395494006915 YCII-related domain; Region: YCII; cl00999 395494006916 BolA-like protein; Region: BolA; cl00386 395494006917 SurA N-terminal domain; Region: SurA_N_3; cl07813 395494006918 PPIC-type PPIASE domain; Region: Rotamase; cl08278 395494006919 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 395494006920 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 395494006921 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 395494006922 putative metal binding site [ion binding]; other site 395494006923 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 395494006924 HSP70 interaction site [polypeptide binding]; other site 395494006925 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 395494006926 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 395494006927 putative ATP binding site [chemical binding]; other site 395494006928 putative substrate interface [chemical binding]; other site 395494006929 CHASE domain; Region: CHASE; cl01369 395494006930 PAS domain S-box; Region: sensory_box; TIGR00229 395494006931 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 395494006932 putative active site [active] 395494006933 heme pocket [chemical binding]; other site 395494006934 PAS domain S-box; Region: sensory_box; TIGR00229 395494006935 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 395494006936 putative active site [active] 395494006937 heme pocket [chemical binding]; other site 395494006938 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 395494006939 PAS domain; Region: PAS_9; pfam13426 395494006940 GAF domain; Region: GAF_2; pfam13185 395494006941 GAF domain; Region: GAF; cl15785 395494006942 PAS domain S-box; Region: sensory_box; TIGR00229 395494006943 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 395494006944 putative active site [active] 395494006945 heme pocket [chemical binding]; other site 395494006946 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 395494006947 dimer interface [polypeptide binding]; other site 395494006948 phosphorylation site [posttranslational modification] 395494006949 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 395494006950 ATP binding site [chemical binding]; other site 395494006951 Mg2+ binding site [ion binding]; other site 395494006952 G-X-G motif; other site 395494006953 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494006954 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 395494006955 Response regulator receiver domain; Region: Response_reg; pfam00072 395494006956 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006957 active site 395494006958 phosphorylation site [posttranslational modification] 395494006959 intermolecular recognition site; other site 395494006960 dimerization interface [polypeptide binding]; other site 395494006961 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 395494006962 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494006963 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494006964 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494006965 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 395494006966 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006967 active site 395494006968 phosphorylation site [posttranslational modification] 395494006969 intermolecular recognition site; other site 395494006970 dimerization interface [polypeptide binding]; other site 395494006971 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494006972 Zn2+ binding site [ion binding]; other site 395494006973 Mg2+ binding site [ion binding]; other site 395494006974 Response regulator receiver domain; Region: Response_reg; pfam00072 395494006975 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494006976 active site 395494006977 phosphorylation site [posttranslational modification] 395494006978 intermolecular recognition site; other site 395494006979 dimerization interface [polypeptide binding]; other site 395494006980 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 395494006981 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 395494006982 active site 395494006983 substrate binding site [chemical binding]; other site 395494006984 catalytic site [active] 395494006985 PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines; Region: PseudoU_synth_RluE; cd02566 395494006986 pseudouridine synthase; Region: TIGR00093 395494006987 probable active site [active] 395494006988 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 395494006989 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 protein; Region: CSP_CDS; cd04458 395494006990 DNA-binding site [nucleotide binding]; DNA binding site 395494006991 RNA-binding motif; other site 395494006992 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 395494006993 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 395494006994 Clp amino terminal domain; Region: Clp_N; pfam02861 395494006995 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 395494006996 Walker A motif; other site 395494006997 ATP binding site [chemical binding]; other site 395494006998 Walker B motif; other site 395494006999 arginine finger; other site 395494007000 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 395494007001 Walker A motif; other site 395494007002 ATP binding site [chemical binding]; other site 395494007003 Walker B motif; other site 395494007004 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 395494007005 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395494007006 active site 395494007007 HIGH motif; other site 395494007008 nucleotide binding site [chemical binding]; other site 395494007009 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395494007010 active site 395494007011 KMSKS motif; other site 395494007012 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 395494007013 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 395494007014 active site 395494007015 substrate binding site [chemical binding]; other site 395494007016 metal binding site [ion binding]; metal-binding site 395494007017 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 395494007018 dihydropteroate synthase; Region: DHPS; TIGR01496 395494007019 substrate binding pocket [chemical binding]; other site 395494007020 dimer interface [polypeptide binding]; other site 395494007021 inhibitor binding site; inhibition site 395494007022 FtsH Extracellular; Region: FtsH_ext; pfam06480 395494007023 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 395494007024 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 395494007025 Walker A motif; other site 395494007026 ATP binding site [chemical binding]; other site 395494007027 Walker B motif; other site 395494007028 arginine finger; other site 395494007029 Peptidase family M41; Region: Peptidase_M41; pfam01434 395494007030 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; cl15754 395494007031 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 395494007032 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 395494007033 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 395494007034 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 395494007035 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395494007036 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 395494007037 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395494007038 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395494007039 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 395494007040 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395494007041 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395494007042 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 395494007043 IMP binding site; other site 395494007044 dimer interface [polypeptide binding]; other site 395494007045 interdomain contacts; other site 395494007046 partial ornithine binding site; other site 395494007047 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 395494007048 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 395494007049 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 395494007050 catalytic site [active] 395494007051 subunit interface [polypeptide binding]; other site 395494007052 Predicted membrane protein [Function unknown]; Region: COG1971 395494007053 Domain of unknown function DUF; Region: DUF204; pfam02659 395494007054 Domain of unknown function DUF; Region: DUF204; pfam02659 395494007055 MASE1; Region: MASE1; pfam05231 395494007056 CHASE domain; Region: CHASE; cl01369 395494007057 PAS domain S-box; Region: sensory_box; TIGR00229 395494007058 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 395494007059 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494007060 GAF domain; Region: GAF; cl15785 395494007061 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 395494007062 PAS domain; Region: PAS_9; pfam13426 395494007063 putative active site [active] 395494007064 heme pocket [chemical binding]; other site 395494007065 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 395494007066 dimer interface [polypeptide binding]; other site 395494007067 phosphorylation site [posttranslational modification] 395494007068 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 395494007069 ATP binding site [chemical binding]; other site 395494007070 Mg2+ binding site [ion binding]; other site 395494007071 G-X-G motif; other site 395494007072 Response regulator receiver domain; Region: Response_reg; pfam00072 395494007073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007074 active site 395494007075 phosphorylation site [posttranslational modification] 395494007076 intermolecular recognition site; other site 395494007077 dimerization interface [polypeptide binding]; other site 395494007078 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395494007079 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007080 active site 395494007081 phosphorylation site [posttranslational modification] 395494007082 intermolecular recognition site; other site 395494007083 dimerization interface [polypeptide binding]; other site 395494007084 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 395494007085 PAS domain; Region: PAS_9; pfam13426 395494007086 putative active site [active] 395494007087 heme pocket [chemical binding]; other site 395494007088 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007089 metal binding site [ion binding]; metal-binding site 395494007090 active site 395494007091 I-site; other site 395494007092 psiF repeat; Region: PsiF_repeat; pfam07769 395494007093 psiF repeat; Region: PsiF_repeat; pfam07769 395494007094 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 395494007095 Uncharacterized conserved protein [Function unknown]; Region: COG4715 395494007096 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 395494007097 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 395494007098 ATP binding site [chemical binding]; other site 395494007099 putative Mg++ binding site [ion binding]; other site 395494007100 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 395494007101 nucleotide binding region [chemical binding]; other site 395494007102 ATP-binding site [chemical binding]; other site 395494007103 Leucine rich repeat; Region: LRR_8; pfam13855 395494007104 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 395494007105 Leucine-rich repeats; other site 395494007106 Leucine rich repeat; Region: LRR_8; pfam13855 395494007107 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494007108 active site 395494007109 ATP binding site [chemical binding]; other site 395494007110 substrate binding site [chemical binding]; other site 395494007111 activation loop (A-loop); other site 395494007112 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 395494007113 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 395494007114 catalytic triad [active] 395494007115 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 395494007116 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 395494007117 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 395494007118 TPP-binding site; other site 395494007119 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 395494007120 PYR/PP interface [polypeptide binding]; other site 395494007121 dimer interface [polypeptide binding]; other site 395494007122 TPP binding site [chemical binding]; other site 395494007123 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395494007124 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 395494007125 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 395494007126 substrate binding pocket [chemical binding]; other site 395494007127 chain length determination region; other site 395494007128 substrate-Mg2+ binding site; other site 395494007129 catalytic residues [active] 395494007130 aspartate-rich region 1; other site 395494007131 active site lid residues [active] 395494007132 aspartate-rich region 2; other site 395494007133 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 395494007134 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395494007135 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 395494007136 [2Fe-2S] cluster binding site [ion binding]; other site 395494007137 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 395494007138 alpha subunit interface [polypeptide binding]; other site 395494007139 active site 395494007140 substrate binding site [chemical binding]; other site 395494007141 Fe binding site [ion binding]; other site 395494007142 EamA-like transporter family; Region: EamA; cl01037 395494007143 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395494007144 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 395494007145 CcdB protein; Region: CcdB; cl03380 395494007146 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 395494007147 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 395494007148 MgtE intracellular N domain; Region: MgtE_N; cl15244 395494007149 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 395494007150 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 395494007151 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 395494007152 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 395494007153 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 395494007154 dimer interface [polypeptide binding]; other site 395494007155 conserved gate region; other site 395494007156 putative PBP binding loops; other site 395494007157 ABC-ATPase subunit interface; other site 395494007158 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 395494007159 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 395494007160 dimer interface [polypeptide binding]; other site 395494007161 conserved gate region; other site 395494007162 putative PBP binding loops; other site 395494007163 ABC-ATPase subunit interface; other site 395494007164 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 395494007165 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 395494007166 Walker A/P-loop; other site 395494007167 ATP binding site [chemical binding]; other site 395494007168 Q-loop/lid; other site 395494007169 ABC transporter signature motif; other site 395494007170 Walker B; other site 395494007171 D-loop; other site 395494007172 H-loop/switch region; other site 395494007173 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 395494007174 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 395494007175 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 395494007176 PAS domain; Region: PAS_9; pfam13426 395494007177 putative active site [active] 395494007178 heme pocket [chemical binding]; other site 395494007179 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494007180 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 395494007181 putative active site [active] 395494007182 heme pocket [chemical binding]; other site 395494007183 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 395494007184 dimer interface [polypeptide binding]; other site 395494007185 phosphorylation site [posttranslational modification] 395494007186 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 395494007187 ATP binding site [chemical binding]; other site 395494007188 Mg2+ binding site [ion binding]; other site 395494007189 G-X-G motif; other site 395494007190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007191 Response regulator receiver domain; Region: Response_reg; pfam00072 395494007192 active site 395494007193 phosphorylation site [posttranslational modification] 395494007194 intermolecular recognition site; other site 395494007195 dimerization interface [polypeptide binding]; other site 395494007196 Response regulator receiver domain; Region: Response_reg; pfam00072 395494007197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007198 active site 395494007199 phosphorylation site [posttranslational modification] 395494007200 intermolecular recognition site; other site 395494007201 dimerization interface [polypeptide binding]; other site 395494007202 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 395494007203 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 395494007204 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 395494007205 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007206 active site 395494007207 phosphorylation site [posttranslational modification] 395494007208 intermolecular recognition site; other site 395494007209 dimerization interface [polypeptide binding]; other site 395494007210 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494007211 Zn2+ binding site [ion binding]; other site 395494007212 Mg2+ binding site [ion binding]; other site 395494007213 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007214 metal binding site [ion binding]; metal-binding site 395494007215 active site 395494007216 I-site; other site 395494007217 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 395494007218 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 395494007219 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 395494007220 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 395494007221 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395494007222 Protein export membrane protein; Region: SecD_SecF; cl14618 395494007223 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 395494007224 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 395494007225 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395494007226 Protein export membrane protein; Region: SecD_SecF; cl14618 395494007227 Preprotein translocase subunit; Region: YajC; cl00806 395494007228 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 395494007229 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 395494007230 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 395494007231 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 395494007232 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 395494007233 nudix motif; other site 395494007234 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 395494007235 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 395494007236 adenylosuccinate lyase; Provisional; Region: PRK09285 395494007237 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 395494007238 tetramer interface [polypeptide binding]; other site 395494007239 active site 395494007240 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 395494007241 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 395494007242 Flavoprotein; Region: Flavoprotein; cl08021 395494007243 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 395494007244 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 395494007245 trimer interface [polypeptide binding]; other site 395494007246 active site 395494007247 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 395494007248 FOG: CBS domain [General function prediction only]; Region: COG0517 395494007249 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 395494007250 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 395494007251 putative active site [active] 395494007252 Ap4A binding site [chemical binding]; other site 395494007253 nudix motif; other site 395494007254 putative metal binding site [ion binding]; other site 395494007255 prolyl-tRNA synthetase; Provisional; Region: PRK09194 395494007256 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 formation of...; Region: ProRS_core_prok; cd00779 395494007257 dimer interface [polypeptide binding]; other site 395494007258 motif 1; other site 395494007259 active site 395494007260 motif 2; other site 395494007261 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 395494007262 putative deacylase active site [active] 395494007263 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 attaches...; Region: class_II_aaRS-like_core; cl00268 395494007264 active site 395494007265 motif 3; other site 395494007266 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 395494007267 anticodon binding site; other site 395494007268 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 catalyze...; Region: LT_GEWL; cd00254 395494007269 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395494007270 catalytic residue [active] 395494007271 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 395494007272 catalytic residues [active] 395494007273 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 395494007274 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 395494007275 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 395494007276 Walker A motif; other site 395494007277 ATP binding site [chemical binding]; other site 395494007278 Walker B motif; other site 395494007279 arginine finger; other site 395494007280 putative outer membrane porin HofQ; Provisional; Region: hofQ; PRK13568 395494007281 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 395494007282 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395494007283 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395494007284 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 395494007285 TPR motif; other site 395494007286 binding surface 395494007287 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 395494007288 TPR motif; other site 395494007289 TPR repeat; Region: TPR_11; pfam13414 395494007290 binding surface 395494007291 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 395494007292 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 395494007293 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 395494007294 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 395494007295 Walker A motif; other site 395494007296 ATP binding site [chemical binding]; other site 395494007297 Walker B motif; other site 395494007298 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 395494007299 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395494007300 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 395494007301 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 395494007302 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 395494007303 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 395494007304 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007305 active site 395494007306 phosphorylation site [posttranslational modification] 395494007307 intermolecular recognition site; other site 395494007308 dimerization interface [polypeptide binding]; other site 395494007309 Helix-turn-helix domains; Region: HTH; cl00088 395494007310 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 395494007311 Transposase IS200 like; Region: Y1_Tnp; cl00848 395494007312 endonuclease IV; Provisional; Region: PRK01060 395494007313 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 395494007314 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 395494007315 active site 395494007316 HIGH motif; other site 395494007317 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 395494007318 KMSKS motif; other site 395494007319 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 395494007320 tRNA binding surface [nucleotide binding]; other site 395494007321 anticodon binding site; other site 395494007322 Predicted membrane protein [Function unknown]; Region: COG3671 395494007323 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 395494007324 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395494007325 active site 395494007326 HIGH motif; other site 395494007327 nucleotide binding site [chemical binding]; other site 395494007328 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 395494007329 KMSKS motif; other site 395494007330 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 395494007331 TPR repeat; Region: TPR_11; pfam13414 395494007332 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 395494007333 binding surface 395494007334 TPR motif; other site 395494007335 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395494007336 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 395494007337 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 395494007338 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 395494007339 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 395494007340 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 395494007341 substrate binding site [chemical binding]; other site 395494007342 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 395494007343 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395494007344 putative active site [active] 395494007345 putative metal binding site [ion binding]; other site 395494007346 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 395494007347 PAS domain S-box; Region: sensory_box; TIGR00229 395494007348 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 395494007349 putative active site [active] 395494007350 heme pocket [chemical binding]; other site 395494007351 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007352 metal binding site [ion binding]; metal-binding site 395494007353 active site 395494007354 I-site; other site 395494007355 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 395494007356 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 395494007357 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 395494007358 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 395494007359 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 395494007360 PAS domain; Region: PAS_9; pfam13426 395494007361 putative active site [active] 395494007362 heme pocket [chemical binding]; other site 395494007363 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007364 metal binding site [ion binding]; metal-binding site 395494007365 active site 395494007366 I-site; other site 395494007367 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 395494007368 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 395494007369 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395494007370 putative active site [active] 395494007371 putative metal binding site [ion binding]; other site 395494007372 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395494007373 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 395494007374 putative ADP-binding pocket [chemical binding]; other site 395494007375 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 395494007376 PAS fold; Region: PAS_3; pfam08447 395494007377 putative active site [active] 395494007378 heme pocket [chemical binding]; other site 395494007379 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007380 metal binding site [ion binding]; metal-binding site 395494007381 active site 395494007382 I-site; other site 395494007383 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 395494007384 tetramer interfaces [polypeptide binding]; other site 395494007385 binuclear metal-binding site [ion binding]; other site 395494007386 thiamine monophosphate kinase; Provisional; Region: PRK05731 395494007387 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 395494007388 ATP binding site [chemical binding]; other site 395494007389 dimerization interface [polypeptide binding]; other site 395494007390 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 395494007391 putative RNA binding site [nucleotide binding]; other site 395494007392 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 395494007393 homopentamer interface [polypeptide binding]; other site 395494007394 active site 395494007395 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 395494007396 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 395494007397 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 395494007398 dimerization interface [polypeptide binding]; other site 395494007399 active site 395494007400 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 395494007401 Lumazine binding domain; Region: Lum_binding; pfam00677 395494007402 Lumazine binding domain; Region: Lum_binding; pfam00677 395494007403 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 395494007404 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 395494007405 catalytic motif [active] 395494007406 Zn binding site [ion binding]; other site 395494007407 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; cl00161 395494007408 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 395494007409 ATP cone domain; Region: ATP-cone; pfam03477 395494007410 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 395494007411 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 395494007412 dimer interface [polypeptide binding]; other site 395494007413 glycine-pyridoxal phosphate binding site [chemical binding]; other site 395494007414 active site 395494007415 folate binding site [chemical binding]; other site 395494007416 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 395494007417 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 395494007418 PAS domain; Region: PAS_9; pfam13426 395494007419 putative active site [active] 395494007420 heme pocket [chemical binding]; other site 395494007421 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007422 metal binding site [ion binding]; metal-binding site 395494007423 active site 395494007424 I-site; other site 395494007425 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 395494007426 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494007427 GAF domain; Region: GAF; cl15785 395494007428 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 395494007429 PAS domain; Region: PAS_9; pfam13426 395494007430 putative active site [active] 395494007431 heme pocket [chemical binding]; other site 395494007432 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007433 metal binding site [ion binding]; metal-binding site 395494007434 active site 395494007435 I-site; other site 395494007436 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 395494007437 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 395494007438 Protein of unknown function (DUF615); Region: DUF615; cl01147 395494007439 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 395494007440 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494007441 dimer interface [polypeptide binding]; other site 395494007442 putative CheW interface [polypeptide binding]; other site 395494007443 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 395494007444 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 395494007445 PAS domain; Region: PAS_9; pfam13426 395494007446 putative active site [active] 395494007447 heme pocket [chemical binding]; other site 395494007448 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 395494007449 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395494007450 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395494007451 metal binding site 2 [ion binding]; metal-binding site 395494007452 putative DNA binding helix; other site 395494007453 metal binding site 1 [ion binding]; metal-binding site 395494007454 dimer interface [polypeptide binding]; other site 395494007455 structural Zn2+ binding site [ion binding]; other site 395494007456 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395494007457 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 395494007458 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 395494007459 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395494007460 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 395494007461 quinone interaction residues [chemical binding]; other site 395494007462 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 395494007463 active site 395494007464 catalytic residues [active] 395494007465 FMN binding site [chemical binding]; other site 395494007466 substrate binding site [chemical binding]; other site 395494007467 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 395494007468 electron transport complex protein RnfB; Provisional; Region: PRK05113 395494007469 Putative Fe-S cluster; Region: FeS; pfam04060 395494007470 4Fe-4S binding domain; Region: Fer4; cl02805 395494007471 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 395494007472 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 395494007473 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 395494007474 SLBB domain; Region: SLBB; pfam10531 395494007475 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 395494007476 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 395494007477 FMN-binding domain; Region: FMN_bind; cl01081 395494007478 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 395494007479 endonuclease III; Provisional; Region: PRK10702 395494007480 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395494007481 minor groove reading motif; other site 395494007482 helix-hairpin-helix signature motif; other site 395494007483 substrate binding pocket [chemical binding]; other site 395494007484 active site 395494007485 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 395494007486 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 395494007487 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395494007488 substrate binding pocket [chemical binding]; other site 395494007489 membrane-bound complex binding site; other site 395494007490 hinge residues; other site 395494007491 PAS fold; Region: PAS_4; pfam08448 395494007492 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395494007493 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 395494007494 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395494007495 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 395494007496 putative active site [active] 395494007497 heme pocket [chemical binding]; other site 395494007498 PAS domain S-box; Region: sensory_box; TIGR00229 395494007499 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 395494007500 putative active site [active] 395494007501 heme pocket [chemical binding]; other site 395494007502 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007503 metal binding site [ion binding]; metal-binding site 395494007504 active site 395494007505 I-site; other site 395494007506 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 395494007507 active site residue [active] 395494007508 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 395494007509 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 395494007510 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 395494007511 dimerization interface [polypeptide binding]; other site 395494007512 putative ATP binding site [chemical binding]; other site 395494007513 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 395494007514 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 395494007515 active site 395494007516 substrate binding site [chemical binding]; other site 395494007517 cosubstrate binding site; other site 395494007518 catalytic site [active] 395494007519 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 395494007520 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 395494007521 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 395494007522 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; cl15754 395494007523 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 395494007524 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 395494007525 active site 395494007526 HIGH motif; other site 395494007527 KMSKS motif; other site 395494007528 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 395494007529 tRNA binding surface [nucleotide binding]; other site 395494007530 anticodon binding site; other site 395494007531 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 395494007532 dimer interface [polypeptide binding]; other site 395494007533 putative tRNA-binding site [nucleotide binding]; other site 395494007534 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 395494007535 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 395494007536 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 395494007537 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 395494007538 hydrogenase 4 subunit F; Validated; Region: PRK06458 395494007539 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395494007540 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 395494007541 NADH dehydrogenase; Region: NADHdh; cl00469 395494007542 hydrogenase 4 subunit B; Validated; Region: PRK06521 395494007543 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 395494007544 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 395494007545 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494007546 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 395494007547 Ferritin-like domain; Region: Ferritin; pfam00210 395494007548 dimerization interface [polypeptide binding]; other site 395494007549 DPS ferroxidase diiron center [ion binding]; other site 395494007550 ion pore; other site 395494007551 Rubredoxin [Energy production and conversion]; Region: COG1773 395494007552 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 395494007553 iron binding site [ion binding]; other site 395494007554 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 395494007555 binuclear metal center [ion binding]; other site 395494007556 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 395494007557 Helix-turn-helix domains; Region: HTH; cl00088 395494007558 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 395494007559 dimerization interface [polypeptide binding]; other site 395494007560 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395494007561 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 395494007562 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 395494007563 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 395494007564 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 395494007565 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 395494007566 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 395494007567 Membrane transport protein; Region: Mem_trans; cl09117 395494007568 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 395494007569 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 395494007570 P loop; other site 395494007571 Nucleotide binding site [chemical binding]; other site 395494007572 DTAP/Switch II; other site 395494007573 Switch I; other site 395494007574 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 395494007575 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 395494007576 P loop; other site 395494007577 Nucleotide binding site [chemical binding]; other site 395494007578 DTAP/Switch II; other site 395494007579 Switch I; other site 395494007580 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 395494007581 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395494007582 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 395494007583 active site 395494007584 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 395494007585 dimerization interface [polypeptide binding]; other site 395494007586 putative DNA binding site [nucleotide binding]; other site 395494007587 putative Zn2+ binding site [ion binding]; other site 395494007588 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 395494007589 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 395494007590 active site 395494007591 DNA binding site [nucleotide binding] 395494007592 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 395494007593 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 395494007594 Catalytic site [active] 395494007595 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 395494007596 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 395494007597 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494007598 Family description; Region: UvrD_C_2; cl15862 395494007599 SlyX; Region: SlyX; cl01090 395494007600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 395494007601 transposase/IS protein; Provisional; Region: PRK09183 395494007602 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 395494007603 Walker A motif; other site 395494007604 ATP binding site [chemical binding]; other site 395494007605 Walker B motif; other site 395494007606 arginine finger; other site 395494007607 Helix-turn-helix domains; Region: HTH; cl00088 395494007608 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395494007609 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 395494007610 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 395494007611 Integrase core domain; Region: rve; cl01316 395494007612 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 395494007613 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 395494007614 active site 1 [active] 395494007615 dimer interface [polypeptide binding]; other site 395494007616 hexamer interface [polypeptide binding]; other site 395494007617 active site 2 [active] 395494007618 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 395494007619 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494007620 Family description; Region: UvrD_C_2; cl15862 395494007621 crystallin beta/gamma motif-containing protein; Region: PHA00657 395494007622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 395494007623 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 395494007624 DNA binding site [nucleotide binding] 395494007625 Int/Topo IB signature motif; other site 395494007626 active site 395494007627 catalytic residues [active] 395494007628 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 395494007629 Int/Topo IB signature motif; other site 395494007630 active site 395494007631 catalytic residues [active] 395494007632 DNA binding site [nucleotide binding] 395494007633 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 395494007634 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 395494007635 dimer interface [polypeptide binding]; other site 395494007636 ssDNA binding site [nucleotide binding]; other site 395494007637 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395494007638 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 395494007639 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 395494007640 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 395494007641 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 395494007642 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 395494007643 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494007644 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494007645 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 395494007646 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 395494007647 P-loop; other site 395494007648 Magnesium ion binding site [ion binding]; other site 395494007649 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494007650 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 395494007651 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 395494007652 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 395494007653 dimer interface [polypeptide binding]; other site 395494007654 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 395494007655 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 395494007656 chaperone protein DnaJ; Provisional; Region: PRK10767 395494007657 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 395494007658 HSP70 interaction site [polypeptide binding]; other site 395494007659 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 395494007660 substrate binding site [polypeptide binding]; other site 395494007661 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 395494007662 Zn binding sites [ion binding]; other site 395494007663 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 395494007664 dimer interface [polypeptide binding]; other site 395494007665 potassium uptake protein; Region: kup; TIGR00794 395494007666 K+ potassium transporter; Region: K_trans; cl15781 395494007667 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 395494007668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007669 active site 395494007670 phosphorylation site [posttranslational modification] 395494007671 intermolecular recognition site; other site 395494007672 dimerization interface [polypeptide binding]; other site 395494007673 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 395494007674 DNA binding site [nucleotide binding] 395494007675 sensor protein KdpD; Provisional; Region: PRK10490 395494007676 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 395494007677 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 395494007678 dimer interface [polypeptide binding]; other site 395494007679 phosphorylation site [posttranslational modification] 395494007680 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 395494007681 ATP binding site [chemical binding]; other site 395494007682 Mg2+ binding site [ion binding]; other site 395494007683 G-X-G motif; other site 395494007684 superoxide dismutase; Provisional; Region: PRK10543 395494007685 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 395494007686 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 395494007687 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 395494007688 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 395494007689 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 395494007690 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 395494007691 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 395494007692 Ferredoxin [Energy production and conversion]; Region: COG1146 395494007693 4Fe-4S binding domain; Region: Fer4; cl02805 395494007694 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 395494007695 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 395494007696 catalytic residues [active] 395494007697 transcription termination factor Rho; Provisional; Region: rho; PRK09376 395494007698 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 395494007699 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 395494007700 RNA binding site [nucleotide binding]; other site 395494007701 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 395494007702 multimer interface [polypeptide binding]; other site 395494007703 Walker A motif; other site 395494007704 ATP binding site [chemical binding]; other site 395494007705 Walker B motif; other site 395494007706 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 395494007707 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 395494007708 GTPase CgtA; Reviewed; Region: obgE; PRK12299 395494007709 GTP1/OBG; Region: GTP1_OBG; pfam01018 395494007710 Obg GTPase; Region: Obg; cd01898 395494007711 G1 box; other site 395494007712 GTP/Mg2+ binding site [chemical binding]; other site 395494007713 Switch I region; other site 395494007714 G2 box; other site 395494007715 G3 box; other site 395494007716 Switch II region; other site 395494007717 G4 box; other site 395494007718 G5 box; other site 395494007719 gamma-glutamyl kinase; Provisional; Region: PRK05429 395494007720 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 395494007721 nucleotide binding site [chemical binding]; other site 395494007722 homotetrameric interface [polypeptide binding]; other site 395494007723 putative phosphate binding site [ion binding]; other site 395494007724 putative allosteric binding site; other site 395494007725 PUA domain; Region: PUA; cl00607 395494007726 FOG: CBS domain [General function prediction only]; Region: COG0517 395494007727 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 395494007728 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 395494007729 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007730 metal binding site [ion binding]; metal-binding site 395494007731 active site 395494007732 I-site; other site 395494007733 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 395494007734 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395494007735 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 395494007736 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 395494007737 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 395494007738 Walker A/P-loop; other site 395494007739 ATP binding site [chemical binding]; other site 395494007740 Q-loop/lid; other site 395494007741 ABC transporter signature motif; other site 395494007742 Walker B; other site 395494007743 D-loop; other site 395494007744 H-loop/switch region; other site 395494007745 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 395494007746 putative active site [active] 395494007747 catalytic site [active] 395494007748 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 395494007749 putative active site [active] 395494007750 catalytic site [active] 395494007751 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395494007752 putative catalytic site [active] 395494007753 putative metal binding site [ion binding]; other site 395494007754 putative phosphate binding site [ion binding]; other site 395494007755 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 395494007756 Quinolinate synthetase A protein; Region: NadA; cl00420 395494007757 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 395494007758 nudix motif; other site 395494007759 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 395494007760 RNAase interaction site [polypeptide binding]; other site 395494007761 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 395494007762 active site 395494007763 barstar interaction site; other site 395494007764 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 395494007765 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 395494007766 dimer interface [polypeptide binding]; other site 395494007767 anticodon binding site; other site 395494007768 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 the...; Region: AspRS_core; cd00777 395494007769 homodimer interface [polypeptide binding]; other site 395494007770 motif 1; other site 395494007771 active site 395494007772 motif 2; other site 395494007773 GAD domain; Region: GAD; pfam02938 395494007774 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 the...; Region: AspRS_core; cd00777 395494007775 motif 3; other site 395494007776 Protein of unknown function (DUF502); Region: DUF502; cl01107 395494007777 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 395494007778 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 395494007779 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 395494007780 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 395494007781 ATP binding site [chemical binding]; other site 395494007782 Mg++ binding site [ion binding]; other site 395494007783 motif III; other site 395494007784 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 395494007785 nucleotide binding region [chemical binding]; other site 395494007786 ATP-binding site [chemical binding]; other site 395494007787 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 395494007788 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 395494007789 Cytochrome c; Region: Cytochrom_C; cl11414 395494007790 Helix-turn-helix domains; Region: HTH; cl00088 395494007791 Rrf2 family protein; Region: rrf2_super; TIGR00738 395494007792 HPP family; Region: HPP; pfam04982 395494007793 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 395494007794 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 395494007795 Cu(I) binding site [ion binding]; other site 395494007796 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 395494007797 Putative water exit pathway; other site 395494007798 Binuclear center (active site) [active] 395494007799 K-pathway; other site 395494007800 Putative proton exit pathway; other site 395494007801 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 395494007802 Helix-turn-helix domains; Region: HTH; cl00088 395494007803 Rrf2 family protein; Region: rrf2_super; TIGR00738 395494007804 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 395494007805 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395494007806 Helix-turn-helix domains; Region: HTH; cl00088 395494007807 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395494007808 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395494007809 Walker A/P-loop; other site 395494007810 ATP binding site [chemical binding]; other site 395494007811 Q-loop/lid; other site 395494007812 ABC transporter signature motif; other site 395494007813 Walker B; other site 395494007814 D-loop; other site 395494007815 H-loop/switch region; other site 395494007816 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395494007817 FtsX-like permease family; Region: FtsX; cl15850 395494007818 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395494007819 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 395494007820 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 395494007821 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 395494007822 DNA binding site [nucleotide binding] 395494007823 Int/Topo IB signature motif; other site 395494007824 active site 395494007825 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395494007826 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 395494007827 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 395494007828 apolar tunnel; other site 395494007829 heme binding site [chemical binding]; other site 395494007830 dimerization interface [polypeptide binding]; other site 395494007831 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 395494007832 substrate binding site [chemical binding]; other site 395494007833 dimerization interface [polypeptide binding]; other site 395494007834 active site 395494007835 calcium binding site [ion binding]; other site 395494007836 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 395494007837 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 395494007838 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 395494007839 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 395494007840 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395494007841 FAD binding domain; Region: FAD_binding_4; pfam01565 395494007842 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 395494007843 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 395494007844 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 395494007845 Cysteine-rich domain; Region: CCG; pfam02754 395494007846 Cysteine-rich domain; Region: CCG; pfam02754 395494007847 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 395494007848 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 395494007849 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395494007850 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 395494007851 dimer interface [polypeptide binding]; other site 395494007852 phosphorylation site [posttranslational modification] 395494007853 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 395494007854 ATP binding site [chemical binding]; other site 395494007855 Mg2+ binding site [ion binding]; other site 395494007856 G-X-G motif; other site 395494007857 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 395494007858 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007859 active site 395494007860 phosphorylation site [posttranslational modification] 395494007861 intermolecular recognition site; other site 395494007862 dimerization interface [polypeptide binding]; other site 395494007863 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 395494007864 DNA binding site [nucleotide binding] 395494007865 Sodium:solute symporter family; Region: SSF; cl00456 395494007866 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 395494007867 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 395494007868 transcriptional regulator PhoU; Provisional; Region: PRK11115 395494007869 PhoU domain; Region: PhoU; pfam01895 395494007870 PhoU domain; Region: PhoU; pfam01895 395494007871 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 395494007872 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395494007873 active site 395494007874 dimer interface [polypeptide binding]; other site 395494007875 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 395494007876 phosphoglucomutase; Region: PLN02307 395494007877 substrate binding site [chemical binding]; other site 395494007878 dimer interface [polypeptide binding]; other site 395494007879 active site 395494007880 metal binding site [ion binding]; metal-binding site 395494007881 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 395494007882 TM2 domain; Region: TM2; cl00984 395494007883 HemY protein N-terminus; Region: HemY_N; pfam07219 395494007884 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 395494007885 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 395494007886 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 395494007887 active site 395494007888 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 395494007889 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 395494007890 domain interfaces; other site 395494007891 active site 395494007892 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 395494007893 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 395494007894 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 395494007895 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 395494007896 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 395494007897 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 395494007898 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 395494007899 2-isopropylmalate synthase; Validated; Region: PRK00915 395494007900 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 395494007901 active site 395494007902 catalytic residues [active] 395494007903 metal binding site [ion binding]; metal-binding site 395494007904 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 395494007905 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 395494007906 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395494007907 ketol-acid reductoisomerase; Provisional; Region: PRK05479 395494007908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494007909 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 395494007910 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 395494007911 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 395494007912 putative valine binding site [chemical binding]; other site 395494007913 dimer interface [polypeptide binding]; other site 395494007914 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 395494007915 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 395494007916 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395494007917 PYR/PP interface [polypeptide binding]; other site 395494007918 dimer interface [polypeptide binding]; other site 395494007919 TPP binding site [chemical binding]; other site 395494007920 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395494007921 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 395494007922 TPP-binding site [chemical binding]; other site 395494007923 dimer interface [polypeptide binding]; other site 395494007924 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395494007925 RNA polymerase factor sigma-70; Validated; Region: PRK09047 395494007926 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 395494007927 DNA binding residues [nucleotide binding] 395494007928 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 395494007929 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 395494007930 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 395494007931 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 395494007932 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 395494007933 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 395494007934 multifunctional aminopeptidase A; Provisional; Region: PRK00913 395494007935 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 395494007936 interface (dimer of trimers) [polypeptide binding]; other site 395494007937 Substrate-binding/catalytic site; other site 395494007938 Zn-binding sites [ion binding]; other site 395494007939 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 395494007940 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 395494007941 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 395494007942 HIGH motif; other site 395494007943 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 395494007944 active site 395494007945 KMSKS motif; other site 395494007946 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 395494007947 tRNA binding surface [nucleotide binding]; other site 395494007948 anticodon binding site; other site 395494007949 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 395494007950 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 395494007951 PAS fold; Region: PAS_3; pfam08447 395494007952 putative active site [active] 395494007953 heme pocket [chemical binding]; other site 395494007954 PAS domain S-box; Region: sensory_box; TIGR00229 395494007955 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 395494007956 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 395494007957 PAS domain; Region: PAS_9; pfam13426 395494007958 putative active site [active] 395494007959 heme pocket [chemical binding]; other site 395494007960 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494007961 metal binding site [ion binding]; metal-binding site 395494007962 active site 395494007963 I-site; other site 395494007964 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 395494007965 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 395494007966 CPxP motif; other site 395494007967 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 395494007968 active site residue [active] 395494007969 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 395494007970 Peptidase family M48; Region: Peptidase_M48; cl12018 395494007971 Flagellin N-methylase; Region: FliB; cl00497 395494007972 hypothetical protein; Provisional; Region: PRK01617 395494007973 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 395494007974 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494007975 active site 395494007976 phosphorylation site [posttranslational modification] 395494007977 intermolecular recognition site; other site 395494007978 dimerization interface [polypeptide binding]; other site 395494007979 LytTr DNA-binding domain; Region: LytTR; cl04498 395494007980 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 395494007981 Histidine kinase; Region: His_kinase; pfam06580 395494007982 argininosuccinate lyase; Provisional; Region: PRK00855 395494007983 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 395494007984 active sites [active] 395494007985 tetramer interface [polypeptide binding]; other site 395494007986 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 395494007987 putative GSH binding site [chemical binding]; other site 395494007988 catalytic residues [active] 395494007989 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 395494007990 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 395494007991 S-adenosylmethionine binding site [chemical binding]; other site 395494007992 peptide chain release factor 1; Validated; Region: prfA; PRK00591 395494007993 RF-1 domain; Region: RF-1; cl02875 395494007994 RF-1 domain; Region: RF-1; cl02875 395494007995 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 395494007996 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 395494007997 tRNA; other site 395494007998 putative tRNA binding site [nucleotide binding]; other site 395494007999 putative NADP binding site [chemical binding]; other site 395494008000 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 395494008001 YaeQ protein; Region: YaeQ; cl01913 395494008002 hypothetical protein; Provisional; Region: PRK01842 395494008003 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 395494008004 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 395494008005 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 395494008006 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 395494008007 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395494008008 DNA-binding site [nucleotide binding]; DNA binding site 395494008009 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 395494008010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494008011 homodimer interface [polypeptide binding]; other site 395494008012 catalytic residue [active] 395494008013 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395494008014 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 395494008015 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 395494008016 active site 395494008017 uracil binding [chemical binding]; other site 395494008018 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 395494008019 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 395494008020 GTP/Mg2+ binding site [chemical binding]; other site 395494008021 G4 box; other site 395494008022 G5 box; other site 395494008023 G1 box; other site 395494008024 Switch I region; other site 395494008025 G2 box; other site 395494008026 G3 box; other site 395494008027 Switch II region; other site 395494008028 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 395494008029 ATP binding site [chemical binding]; other site 395494008030 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 395494008031 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 395494008032 S-adenosylmethionine binding site [chemical binding]; other site 395494008033 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 395494008034 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 395494008035 active site 395494008036 dimer interface [polypeptide binding]; other site 395494008037 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 395494008038 Ligand Binding Site [chemical binding]; other site 395494008039 Molecular Tunnel; other site 395494008040 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395494008041 TPR repeat; Region: TPR_11; pfam13414 395494008042 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 395494008043 binding surface 395494008044 TPR motif; other site 395494008045 putative major pilin subunit; Provisional; Region: PRK10574 395494008046 GAF domain; Region: GAF; cl15785 395494008047 GAF domain; Region: GAF_2; pfam13185 395494008048 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 395494008049 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494008050 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395494008051 GAF domain; Region: GAF; cl15785 395494008052 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 395494008053 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 395494008054 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494008055 Walker A motif; other site 395494008056 ATP binding site [chemical binding]; other site 395494008057 Walker B motif; other site 395494008058 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395494008059 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 395494008060 phosphopeptide binding site; other site 395494008061 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 395494008062 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 395494008063 active site 395494008064 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 395494008065 Ligand Binding Site [chemical binding]; other site 395494008066 Integral membrane protein TerC family; Region: TerC; cl10468 395494008067 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 395494008068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494008069 CoA-ligase; Region: Ligase_CoA; cl02894 395494008070 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 395494008071 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395494008072 CoA-ligase; Region: Ligase_CoA; cl02894 395494008073 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 395494008074 phosphoenolpyruvate synthase; Validated; Region: PRK06464 395494008075 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 395494008076 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 395494008077 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; cl09155 395494008078 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395494008079 Helix-turn-helix domains; Region: HTH; cl00088 395494008080 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 395494008081 dimerization interface [polypeptide binding]; other site 395494008082 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 395494008083 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 395494008084 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 395494008085 ATP binding site [chemical binding]; other site 395494008086 Mg++ binding site [ion binding]; other site 395494008087 motif III; other site 395494008088 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 395494008089 nucleotide binding region [chemical binding]; other site 395494008090 ATP-binding site [chemical binding]; other site 395494008091 DbpA RNA binding domain; Region: DbpA; pfam03880 395494008092 Protein of unknown function DUF45; Region: DUF45; cl00636 395494008093 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 395494008094 PAS domain; Region: PAS_9; pfam13426 395494008095 putative active site [active] 395494008096 heme pocket [chemical binding]; other site 395494008097 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 395494008098 PAS domain; Region: PAS_9; pfam13426 395494008099 putative active site [active] 395494008100 heme pocket [chemical binding]; other site 395494008101 PAS domain S-box; Region: sensory_box; TIGR00229 395494008102 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 395494008103 putative active site [active] 395494008104 heme pocket [chemical binding]; other site 395494008105 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 395494008106 PAS fold; Region: PAS_3; pfam08447 395494008107 putative active site [active] 395494008108 heme pocket [chemical binding]; other site 395494008109 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 395494008110 dimer interface [polypeptide binding]; other site 395494008111 phosphorylation site [posttranslational modification] 395494008112 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 395494008113 ATP binding site [chemical binding]; other site 395494008114 Mg2+ binding site [ion binding]; other site 395494008115 G-X-G motif; other site 395494008116 Response regulator receiver domain; Region: Response_reg; pfam00072 395494008117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494008118 active site 395494008119 phosphorylation site [posttranslational modification] 395494008120 intermolecular recognition site; other site 395494008121 dimerization interface [polypeptide binding]; other site 395494008122 Response regulator receiver domain; Region: Response_reg; pfam00072 395494008123 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494008124 active site 395494008125 phosphorylation site [posttranslational modification] 395494008126 intermolecular recognition site; other site 395494008127 dimerization interface [polypeptide binding]; other site 395494008128 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 395494008129 FIST N domain; Region: FIST; cl10701 395494008130 FIST C domain; Region: FIST_C; pfam10442 395494008131 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 395494008132 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 395494008133 Ligand Binding Site [chemical binding]; other site 395494008134 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 395494008135 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 395494008136 FeS/SAM binding site; other site 395494008137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 395494008138 Tetratricopeptide repeat; Region: TPR_6; pfam13174 395494008139 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395494008140 ligand binding site [chemical binding]; other site 395494008141 translocation protein TolB; Provisional; Region: tolB; PRK02889 395494008142 TolB amino-terminal domain; Region: TolB_N; cl00639 395494008143 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395494008144 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395494008145 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395494008146 Gram-negative bacterial tonB protein; Region: TonB; cl10048 395494008147 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 395494008148 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395494008149 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 395494008150 active site 395494008151 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 395494008152 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 395494008153 Walker A motif; other site 395494008154 ATP binding site [chemical binding]; other site 395494008155 Walker B motif; other site 395494008156 arginine finger; other site 395494008157 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 395494008158 hypothetical protein; Provisional; Region: PRK10396 395494008159 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 395494008160 SEC-C motif; Region: SEC-C; pfam02810 395494008161 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 395494008162 RuvA N terminal domain; Region: RuvA_N; pfam01330 395494008163 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 395494008164 UbiA prenyltransferase family; Region: UbiA; cl00337 395494008165 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 includes...; Region: RuvC_resolvase; cd00529 395494008166 active site 395494008167 putative DNA-binding cleft [nucleotide binding]; other site 395494008168 dimer interface [polypeptide binding]; other site 395494008169 Transcriptional regulator; Region: Transcrip_reg; cl00361 395494008170 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395494008171 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 395494008172 P-loop; other site 395494008173 Magnesium ion binding site [ion binding]; other site 395494008174 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 395494008175 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 395494008176 Malic enzyme, N-terminal domain; Region: malic; pfam00390 395494008177 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 395494008178 putative NAD(P) binding site [chemical binding]; other site 395494008179 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 395494008180 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 395494008181 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 395494008182 ATP binding site [chemical binding]; other site 395494008183 putative Mg++ binding site [ion binding]; other site 395494008184 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 395494008185 nucleotide binding region [chemical binding]; other site 395494008186 ATP-binding site [chemical binding]; other site 395494008187 Helicase associated domain (HA2); Region: HA2; cl04503 395494008188 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 395494008189 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 395494008190 EamA-like transporter family; Region: EamA; cl01037 395494008191 Protein of unknown function (DUF342); Region: DUF342; pfam03961 395494008192 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 395494008193 ligand binding site [chemical binding]; other site 395494008194 flexible hinge region; other site 395494008195 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 395494008196 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395494008197 putative substrate translocation pore; other site 395494008198 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 395494008199 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 395494008200 metal binding site [ion binding]; metal-binding site 395494008201 dimer interface [polypeptide binding]; other site 395494008202 HI0933-like protein; Region: HI0933_like; pfam03486 395494008203 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395494008204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494008205 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 395494008206 Ligand Binding Site [chemical binding]; other site 395494008207 KTSC domain; Region: KTSC; pfam13619 395494008208 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395494008209 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 395494008210 BRO family, N-terminal domain; Region: Bro-N; cl10591 395494008211 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 395494008212 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395494008213 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395494008214 ABC transporter; Region: ABC_tran_2; pfam12848 395494008215 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 395494008216 Ferritin-like domain; Region: Ferritin; pfam00210 395494008217 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 395494008218 dinuclear metal binding motif [ion binding]; other site 395494008219 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 395494008220 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 395494008221 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494008222 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 395494008223 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494008224 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 395494008225 Response regulator receiver domain; Region: Response_reg; pfam00072 395494008226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494008227 active site 395494008228 phosphorylation site [posttranslational modification] 395494008229 intermolecular recognition site; other site 395494008230 dimerization interface [polypeptide binding]; other site 395494008231 Gram-negative bacterial tonB protein; Region: TonB; cl10048 395494008232 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 395494008233 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 395494008234 N-terminal plug; other site 395494008235 ligand-binding site [chemical binding]; other site 395494008236 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 395494008237 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 395494008238 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 395494008239 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395494008240 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 395494008241 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 395494008242 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 395494008243 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 395494008244 4Fe-4S binding domain; Region: Fer4_5; pfam12801 395494008245 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 395494008246 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 395494008247 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 395494008248 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 395494008249 N-terminal plug; other site 395494008250 ligand-binding site [chemical binding]; other site 395494008251 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 395494008252 Cytochrome C'; Region: Cytochrom_C_2; cl01610 395494008253 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494008254 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494008255 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494008256 Protein of unknown function, DUF485; Region: DUF485; cl01231 395494008257 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 395494008258 active site 395494008259 substrate binding site [chemical binding]; other site 395494008260 catalytic site [active] 395494008261 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 395494008262 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 395494008263 ligand binding site [chemical binding]; other site 395494008264 flexible hinge region; other site 395494008265 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 395494008266 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395494008267 metal binding triad; other site 395494008268 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 395494008269 active site 395494008270 catalytic triad [active] 395494008271 oxyanion hole [active] 395494008272 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 395494008273 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 395494008274 G1 box; other site 395494008275 putative GEF interaction site [polypeptide binding]; other site 395494008276 GTP/Mg2+ binding site [chemical binding]; other site 395494008277 Switch I region; other site 395494008278 G2 box; other site 395494008279 G3 box; other site 395494008280 Switch II region; other site 395494008281 G4 box; other site 395494008282 G5 box; other site 395494008283 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 395494008284 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 395494008285 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 395494008286 ring oligomerisation interface [polypeptide binding]; other site 395494008287 ATP/Mg binding site [chemical binding]; other site 395494008288 stacking interactions; other site 395494008289 hinge regions; other site 395494008290 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 395494008291 oligomerisation interface [polypeptide binding]; other site 395494008292 mobile loop; other site 395494008293 roof hairpin; other site 395494008294 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 395494008295 FMN binding site [chemical binding]; other site 395494008296 substrate binding site [chemical binding]; other site 395494008297 putative catalytic residue [active] 395494008298 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 395494008299 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 395494008300 inhibitor-cofactor binding pocket; inhibition site 395494008301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494008302 catalytic residue [active] 395494008303 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 395494008304 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395494008305 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 395494008306 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 395494008307 putative acyl-acceptor binding pocket; other site 395494008308 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 395494008309 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 395494008310 putative acyl-acceptor binding pocket; other site 395494008311 S-adenosylmethionine synthetase; Validated; Region: PRK05250 395494008312 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 395494008313 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 395494008314 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 395494008315 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 395494008316 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494008317 Zn2+ binding site [ion binding]; other site 395494008318 Mg2+ binding site [ion binding]; other site 395494008319 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 395494008320 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 395494008321 oligomerization interface [polypeptide binding]; other site 395494008322 active site 395494008323 NAD+ binding site [chemical binding]; other site 395494008324 Membrane protein of unknown function; Region: DUF360; cl00850 395494008325 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 395494008326 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 395494008327 FAD binding site [chemical binding]; other site 395494008328 putative protease; Provisional; Region: PRK15452 395494008329 Peptidase family U32; Region: Peptidase_U32; cl03113 395494008330 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 395494008331 Domain of unknown function (DUF386); Region: DUF386; cl01047 395494008332 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 395494008333 homotrimer interaction site [polypeptide binding]; other site 395494008334 putative active site [active] 395494008335 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 395494008336 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 395494008337 generic binding surface II; other site 395494008338 ssDNA binding site; other site 395494008339 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 395494008340 ATP binding site [chemical binding]; other site 395494008341 putative Mg++ binding site [ion binding]; other site 395494008342 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 395494008343 nucleotide binding region [chemical binding]; other site 395494008344 ATP-binding site [chemical binding]; other site 395494008345 UTRA domain; Region: UTRA; cl01230 395494008346 UbiA prenyltransferase family; Region: UbiA; cl00337 395494008347 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 395494008348 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 395494008349 S-adenosylmethionine binding site [chemical binding]; other site 395494008350 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 395494008351 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 395494008352 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 395494008353 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 395494008354 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 395494008355 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395494008356 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 395494008357 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 395494008358 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 395494008359 purine monophosphate binding site [chemical binding]; other site 395494008360 dimer interface [polypeptide binding]; other site 395494008361 putative catalytic residues [active] 395494008362 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 395494008363 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 395494008364 Helix-turn-helix domains; Region: HTH; cl00088 395494008365 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 395494008366 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 395494008367 FMN binding site [chemical binding]; other site 395494008368 active site 395494008369 catalytic residues [active] 395494008370 substrate binding site [chemical binding]; other site 395494008371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494008372 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 395494008373 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 395494008374 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 395494008375 dimerization domain [polypeptide binding]; other site 395494008376 dimer interface [polypeptide binding]; other site 395494008377 catalytic residues [active] 395494008378 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 395494008379 PAS domain; Region: PAS_9; pfam13426 395494008380 putative active site [active] 395494008381 heme pocket [chemical binding]; other site 395494008382 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494008383 metal binding site [ion binding]; metal-binding site 395494008384 active site 395494008385 I-site; other site 395494008386 MltA specific insert domain; Region: MltA; cl08398 395494008387 3D domain; Region: 3D; cl01439 395494008388 Protein of unknown function (DUF525); Region: DUF525; cl01119 395494008389 threonine dehydratase; Reviewed; Region: PRK09224 395494008390 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 395494008391 tetramer interface [polypeptide binding]; other site 395494008392 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494008393 catalytic residue [active] 395494008394 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 395494008395 putative Ile/Val binding site [chemical binding]; other site 395494008396 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 395494008397 putative Ile/Val binding site [chemical binding]; other site 395494008398 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 395494008399 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 395494008400 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 395494008401 dimer interface [polypeptide binding]; other site 395494008402 TPP-binding site [chemical binding]; other site 395494008403 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 395494008404 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 395494008405 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 395494008406 E3 interaction surface; other site 395494008407 lipoyl attachment site [posttranslational modification]; other site 395494008408 e3 binding domain; Region: E3_binding; pfam02817 395494008409 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 395494008410 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 395494008411 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 395494008412 active site 395494008413 (T/H)XGH motif; other site 395494008414 Oligomerisation domain; Region: Oligomerisation; cl00519 395494008415 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 395494008416 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 395494008417 Maf-like protein; Region: Maf; pfam02545 395494008418 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 395494008419 active site 395494008420 dimer interface [polypeptide binding]; other site 395494008421 ribonuclease G; Provisional; Region: PRK11712 395494008422 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 395494008423 homodimer interface [polypeptide binding]; other site 395494008424 oligonucleotide binding site [chemical binding]; other site 395494008425 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 395494008426 YGGT family; Region: YGGT; cl00508 395494008427 YGGT family; Region: YGGT; cl00508 395494008428 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 395494008429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494008430 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 395494008431 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395494008432 catalytic residue [active] 395494008433 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 395494008434 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 395494008435 Walker A motif; other site 395494008436 ATP binding site [chemical binding]; other site 395494008437 Walker B motif; other site 395494008438 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 395494008439 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494008440 Walker A motif; other site 395494008441 ATP binding site [chemical binding]; other site 395494008442 Walker B motif; other site 395494008443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494008444 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 395494008445 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 395494008446 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 395494008447 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 395494008448 GAF domain; Region: GAF; cl15785 395494008449 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 395494008450 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 395494008451 DNA binding site [nucleotide binding] 395494008452 Int/Topo IB signature motif; other site 395494008453 active site 395494008454 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 395494008455 PUA domain; Region: PUA; cl00607 395494008456 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 395494008457 S-adenosylmethionine binding site [chemical binding]; other site 395494008458 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 395494008459 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 395494008460 catalytic loop [active] 395494008461 iron binding site [ion binding]; other site 395494008462 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 395494008463 FAD binding pocket [chemical binding]; other site 395494008464 FAD binding motif [chemical binding]; other site 395494008465 phosphate binding motif [ion binding]; other site 395494008466 beta-alpha-beta structure motif; other site 395494008467 NAD binding pocket [chemical binding]; other site 395494008468 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395494008469 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 395494008470 putative NAD(P) binding site [chemical binding]; other site 395494008471 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 395494008472 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 395494008473 active site 395494008474 metal binding site [ion binding]; metal-binding site 395494008475 heat shock protein 90; Provisional; Region: PRK05218 395494008476 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 395494008477 ATP binding site [chemical binding]; other site 395494008478 Mg2+ binding site [ion binding]; other site 395494008479 G-X-G motif; other site 395494008480 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395494008481 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395494008482 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 395494008483 putative N-terminal domain interface [polypeptide binding]; other site 395494008484 putative dimer interface [polypeptide binding]; other site 395494008485 putative substrate binding pocket (H-site) [chemical binding]; other site 395494008486 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 395494008487 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 395494008488 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 395494008489 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 395494008490 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 395494008491 glutamine binding [chemical binding]; other site 395494008492 catalytic triad [active] 395494008493 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 395494008494 anthranilate synthase component I; Provisional; Region: PRK13565 395494008495 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 395494008496 chorismate binding enzyme; Region: Chorismate_bind; cl10555 395494008497 phosphoglycolate phosphatase; Provisional; Region: PRK13222 395494008498 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 395494008499 motif II; other site 395494008500 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 395494008501 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 395494008502 substrate binding site [chemical binding]; other site 395494008503 hexamer interface [polypeptide binding]; other site 395494008504 metal binding site [ion binding]; metal-binding site 395494008505 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395494008506 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494008507 signal recognition particle protein; Provisional; Region: PRK10867 395494008508 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 395494008509 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 395494008510 P loop; other site 395494008511 GTP binding site [chemical binding]; other site 395494008512 Signal peptide binding domain; Region: SRP_SPB; pfam02978 395494008513 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 395494008514 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 395494008515 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 395494008516 RimM N-terminal domain; Region: RimM; pfam01782 395494008517 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 395494008518 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 395494008519 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 395494008520 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395494008521 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 395494008522 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 395494008523 Walker A motif; other site 395494008524 ATP binding site [chemical binding]; other site 395494008525 Walker B motif; other site 395494008526 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395494008527 Integrase core domain; Region: rve; cl01316 395494008528 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395494008529 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 395494008530 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 395494008531 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 395494008532 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395494008533 Cation efflux family; Region: Cation_efflux; cl00316 395494008534 Protein of unknown function, DUF; Region: DUF411; cl01142 395494008535 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 395494008536 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395494008537 Zn2+ binding site [ion binding]; other site 395494008538 Mg2+ binding site [ion binding]; other site 395494008539 conserved hypothetical protein; Region: TIGR02270 395494008540 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 395494008541 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 395494008542 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395494008543 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395494008544 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494008545 Phospholipid methyltransferase; Region: PEMT; cl00763 395494008546 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 395494008547 Response regulator receiver domain; Region: Response_reg; pfam00072 395494008548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494008549 active site 395494008550 phosphorylation site [posttranslational modification] 395494008551 intermolecular recognition site; other site 395494008552 dimerization interface [polypeptide binding]; other site 395494008553 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 395494008554 PAS fold; Region: PAS_4; pfam08448 395494008555 PAS domain S-box; Region: sensory_box; TIGR00229 395494008556 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 395494008557 putative active site [active] 395494008558 heme pocket [chemical binding]; other site 395494008559 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494008560 Histidine kinase; Region: HisKA_3; pfam07730 395494008561 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 395494008562 ATP binding site [chemical binding]; other site 395494008563 Mg2+ binding site [ion binding]; other site 395494008564 G-X-G motif; other site 395494008565 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 395494008566 PAS domain; Region: PAS_9; pfam13426 395494008567 putative active site [active] 395494008568 heme pocket [chemical binding]; other site 395494008569 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 395494008570 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 395494008571 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395494008572 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494008573 dimer interface [polypeptide binding]; other site 395494008574 putative CheW interface [polypeptide binding]; other site 395494008575 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 395494008576 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 395494008577 DNA binding site [nucleotide binding] 395494008578 active site 395494008579 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 395494008580 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 395494008581 Int/Topo IB signature motif; other site 395494008582 active site 395494008583 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 395494008584 dimer interface [polypeptide binding]; other site 395494008585 [2Fe-2S] cluster binding site [ion binding]; other site 395494008586 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 395494008587 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 395494008588 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494008589 nodulation ABC transporter NodI; Provisional; Region: PRK13537 395494008590 Walker A/P-loop; other site 395494008591 ATP binding site [chemical binding]; other site 395494008592 Q-loop/lid; other site 395494008593 ABC transporter signature motif; other site 395494008594 Walker B; other site 395494008595 D-loop; other site 395494008596 H-loop/switch region; other site 395494008597 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 395494008598 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395494008599 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 395494008600 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 395494008601 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395494008602 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 395494008603 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395494008604 DNA-binding site [nucleotide binding]; DNA binding site 395494008605 UTRA domain; Region: UTRA; cl01230 395494008606 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 395494008607 NMT1-like family; Region: NMT1_2; cl15260 395494008608 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 395494008609 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 395494008610 Walker A/P-loop; other site 395494008611 ATP binding site [chemical binding]; other site 395494008612 Q-loop/lid; other site 395494008613 ABC transporter signature motif; other site 395494008614 Walker B; other site 395494008615 D-loop; other site 395494008616 H-loop/switch region; other site 395494008617 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 395494008618 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 395494008619 dimer interface [polypeptide binding]; other site 395494008620 conserved gate region; other site 395494008621 ABC-ATPase subunit interface; other site 395494008622 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 395494008623 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 395494008624 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 395494008625 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 395494008626 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 395494008627 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 395494008628 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 395494008629 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 395494008630 Walker A/P-loop; other site 395494008631 ATP binding site [chemical binding]; other site 395494008632 Q-loop/lid; other site 395494008633 ABC transporter signature motif; other site 395494008634 Walker B; other site 395494008635 D-loop; other site 395494008636 H-loop/switch region; other site 395494008637 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395494008638 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 395494008639 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 395494008640 Walker A/P-loop; other site 395494008641 ATP binding site [chemical binding]; other site 395494008642 Q-loop/lid; other site 395494008643 ABC transporter signature motif; other site 395494008644 Walker B; other site 395494008645 D-loop; other site 395494008646 H-loop/switch region; other site 395494008647 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 395494008648 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 395494008649 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 395494008650 active site 395494008651 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494008652 active site 395494008653 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395494008654 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 395494008655 EamA-like transporter family; Region: EamA; cl01037 395494008656 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 395494008657 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 395494008658 DNA binding site [nucleotide binding] 395494008659 Int/Topo IB signature motif; other site 395494008660 active site 395494008661 catalytic residues [active] 395494008662 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 395494008663 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494008664 Family description; Region: UvrD_C_2; cl15862 395494008665 ABC-2 type transporter; Region: ABC2_membrane; cl11417 395494008666 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 395494008667 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494008668 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494008669 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 395494008670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494008671 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 395494008672 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 395494008673 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494008674 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 395494008675 nucleotide binding region [chemical binding]; other site 395494008676 ATP-binding site [chemical binding]; other site 395494008677 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 395494008678 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 395494008679 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 395494008680 dimerization interface [polypeptide binding]; other site 395494008681 domain crossover interface; other site 395494008682 redox-dependent activation switch; other site 395494008683 Dimeric dUTPase [Carbohydrate transport and metabolism]; Region: COG4508 395494008684 dUTPase; Region: dUTPase_2; pfam08761 395494008685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494008686 active site 395494008687 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 395494008688 phosphorylation site [posttranslational modification] 395494008689 intermolecular recognition site; other site 395494008690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 395494008691 active site 395494008692 phosphorylation site [posttranslational modification] 395494008693 intermolecular recognition site; other site 395494008694 dimerization interface [polypeptide binding]; other site 395494008695 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494008696 metal binding site [ion binding]; metal-binding site 395494008697 active site 395494008698 I-site; other site 395494008699 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 395494008700 AsmA family; Region: AsmA; pfam05170 395494008701 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 395494008702 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 395494008703 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 395494008704 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 395494008705 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 395494008706 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 395494008707 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395494008708 metal binding site [ion binding]; metal-binding site 395494008709 active site 395494008710 I-site; other site 395494008711 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 395494008712 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395494008713 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395494008714 dimer interface [polypeptide binding]; other site 395494008715 putative CheW interface [polypeptide binding]; other site 395494008716 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395494008717 putative acyl-acceptor binding pocket; other site 395494008718 Virulence protein [General function prediction only]; Region: COG3943 395494008719 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 395494008720 Predicted helicase [General function prediction only]; Region: COG4889 395494008721 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 395494008722 ATP binding site [chemical binding]; other site 395494008723 putative Mg++ binding site [ion binding]; other site 395494008724 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 395494008725 nucleotide binding region [chemical binding]; other site 395494008726 ATP-binding site [chemical binding]; other site 395494008727 Helicase associated domain; Region: HA; pfam03457 395494008728 Helicase associated domain; Region: HA; pfam03457 395494008729 Helicase associated domain; Region: HA; pfam03457 395494008730 Helicase associated domain; Region: HA; pfam03457 395494008731 Helicase associated domain; Region: HA; pfam03457 395494008732 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 395494008733 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 395494008734 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 395494008735 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 395494008736 catalytic residues [active] 395494008737 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 395494008738 RNA binding surface [nucleotide binding]; other site 395494008739 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 395494008740 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 395494008741 Sporulation related domain; Region: SPOR; cl10051 395494008742 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 395494008743 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 395494008744 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 395494008745 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 395494008746 rod shape-determining protein MreD; Region: MreD; cl01087 395494008747 rod shape-determining protein MreC; Provisional; Region: PRK13922 395494008748 rod shape-determining protein MreC; Region: MreC; pfam04085 395494008749 rod shape-determining protein MreB; Provisional; Region: PRK13927 395494008750 hypothetical protein; Provisional; Region: PRK10039 395494008751 Cell division protein FtsA; Region: FtsA; cl11496 395494008752 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 395494008753 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395494008754 Amidase; Region: Amidase; cl11426 395494008755 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 395494008756 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 395494008757 GatB domain; Region: GatB_Yqey; cl11497 395494008758 NlpC/P60 family; Region: NLPC_P60; cl11438 395494008759 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 395494008760 POPLD (NUC188) domain; Region: POPLD; pfam08170 395494008761 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395494008762 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 395494008763 lipoyl attachment site [posttranslational modification]; other site 395494008764 glycine dehydrogenase; Provisional; Region: PRK05367 395494008765 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 395494008766 tetramer interface [polypeptide binding]; other site 395494008767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494008768 catalytic residue [active] 395494008769 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 395494008770 tetramer interface [polypeptide binding]; other site 395494008771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494008772 catalytic residue [active] 395494008773 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 395494008774 dimer interface [polypeptide binding]; other site 395494008775 catalytic triad [active] 395494008776 peroxidatic and resolving cysteines [active] 395494008777 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395494008778 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 395494008779 substrate binding site [chemical binding]; other site 395494008780 ATP binding site [chemical binding]; other site 395494008781 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 395494008782 cyclase homology domain; Region: CHD; cd07302 395494008783 nucleotidyl binding site; other site 395494008784 metal binding site [ion binding]; metal-binding site 395494008785 dimer interface [polypeptide binding]; other site 395494008786 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 395494008787 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 395494008788 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 395494008789 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 395494008790 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 395494008791 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 395494008792 active site 395494008793 metal binding site [ion binding]; metal-binding site 395494008794 OpgC protein; Region: OpgC_C; cl00792 395494008795 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395494008796 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 395494008797 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 395494008798 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395494008799 active site 395494008800 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494008801 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 395494008802 O-Antigen ligase; Region: Wzy_C; cl04850 395494008803 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395494008804 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 395494008805 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 395494008806 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 395494008807 active site 395494008808 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 395494008809 putative metal binding site; other site 395494008810 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 395494008811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494008812 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 395494008813 NAD(P) binding site [chemical binding]; other site 395494008814 homodimer interface [polypeptide binding]; other site 395494008815 substrate binding site [chemical binding]; other site 395494008816 active site 395494008817 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 395494008818 Mg++ binding site [ion binding]; other site 395494008819 putative catalytic motif [active] 395494008820 putative substrate binding site [chemical binding]; other site 395494008821 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395494008822 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 395494008823 putative active site [active] 395494008824 Cupin domain; Region: Cupin_2; cl09118 395494008825 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 395494008826 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 395494008827 substrate binding site; other site 395494008828 tetramer interface; other site 395494008829 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 395494008830 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 395494008831 NADP binding site [chemical binding]; other site 395494008832 active site 395494008833 putative substrate binding site [chemical binding]; other site 395494008834 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 395494008835 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 395494008836 NAD binding site [chemical binding]; other site 395494008837 substrate binding site [chemical binding]; other site 395494008838 homodimer interface [polypeptide binding]; other site 395494008839 active site 395494008840 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395494008841 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 395494008842 putative NAD(P) binding site [chemical binding]; other site 395494008843 active site 395494008844 putative substrate binding site [chemical binding]; other site 395494008845 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 395494008846 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 395494008847 active site 395494008848 homodimer interface [polypeptide binding]; other site 395494008849 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 395494008850 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 395494008851 NAD(P) binding site [chemical binding]; other site 395494008852 homodimer interface [polypeptide binding]; other site 395494008853 substrate binding site [chemical binding]; other site 395494008854 active site 395494008855 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 395494008856 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 395494008857 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 395494008858 NADP binding site [chemical binding]; other site 395494008859 active site 395494008860 putative substrate binding site [chemical binding]; other site 395494008861 putative glycosyl transferase; Provisional; Region: PRK10307 395494008862 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 395494008863 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395494008864 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 395494008865 putative ADP-binding pocket [chemical binding]; other site 395494008866 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395494008867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494008868 NAD(P) binding site [chemical binding]; other site 395494008869 active site 395494008870 Rhamnan synthesis protein F; Region: RgpF; cl01529 395494008871 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 395494008872 trimer interface [polypeptide binding]; other site 395494008873 active site 395494008874 substrate binding site [chemical binding]; other site 395494008875 CoA binding site [chemical binding]; other site 395494008876 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 395494008877 active site 395494008878 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 395494008879 active site 395494008880 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395494008881 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494008882 Walker A/P-loop; other site 395494008883 ATP binding site [chemical binding]; other site 395494008884 Q-loop/lid; other site 395494008885 ABC transporter signature motif; other site 395494008886 Walker B; other site 395494008887 D-loop; other site 395494008888 H-loop/switch region; other site 395494008889 CDP-tyvelose 2-epimerase, extended (e) SDRs; Region: CDP_TE_SDR_e; cd05258 395494008890 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 395494008891 NAD binding site [chemical binding]; other site 395494008892 homotetramer interface [polypeptide binding]; other site 395494008893 homodimer interface [polypeptide binding]; other site 395494008894 active site 395494008895 substrate binding site [chemical binding]; other site 395494008896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494008897 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395494008898 NAD(P) binding site [chemical binding]; other site 395494008899 active site 395494008900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494008901 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395494008902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494008903 NAD(P) binding site [chemical binding]; other site 395494008904 active site 395494008905 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 395494008906 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395494008907 PYR/PP interface [polypeptide binding]; other site 395494008908 dimer interface [polypeptide binding]; other site 395494008909 TPP binding site [chemical binding]; other site 395494008910 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 395494008911 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 395494008912 TPP-binding site [chemical binding]; other site 395494008913 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 395494008914 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 395494008915 inhibitor-cofactor binding pocket; inhibition site 395494008916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395494008917 catalytic residue [active] 395494008918 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 395494008919 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 395494008920 NAD binding site [chemical binding]; other site 395494008921 homotetramer interface [polypeptide binding]; other site 395494008922 homodimer interface [polypeptide binding]; other site 395494008923 substrate binding site [chemical binding]; other site 395494008924 active site 395494008925 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 395494008926 substrate binding site; other site 395494008927 Helix-turn-helix domains; Region: HTH; cl00088 395494008928 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 395494008929 Predicted integral membrane protein [Function unknown]; Region: COG0392 395494008930 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 395494008931 UbiA prenyltransferase family; Region: UbiA; cl00337 395494008932 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 395494008933 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 395494008934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494008935 NAD(P) binding site [chemical binding]; other site 395494008936 active site 395494008937 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395494008938 FAD binding domain; Region: FAD_binding_4; pfam01565 395494008939 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 395494008940 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 395494008941 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 395494008942 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 395494008943 S-adenosylmethionine binding site [chemical binding]; other site 395494008944 ThiC-associated domain; Region: ThiC-associated; pfam13667 395494008945 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 395494008946 ThiC family; Region: ThiC; cl08031 395494008947 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 395494008948 Bacitracin resistance protein BacA; Region: BacA; cl00858 395494008949 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 395494008950 polyphosphate kinase; Provisional; Region: PRK05443 395494008951 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 395494008952 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 395494008953 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 395494008954 putative domain interface [polypeptide binding]; other site 395494008955 putative active site [active] 395494008956 catalytic site [active] 395494008957 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 395494008958 putative domain interface [polypeptide binding]; other site 395494008959 putative active site [active] 395494008960 catalytic site [active] 395494008961 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 395494008962 catalytic core [active] 395494008963 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 395494008964 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 395494008965 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 395494008966 Sulfate transporter family; Region: Sulfate_transp; cl15842 395494008967 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 395494008968 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 395494008969 ligand binding site [chemical binding]; other site 395494008970 flexible hinge region; other site 395494008971 Protein of unknown function (DUF2288); Region: DUF2288; cl02399 395494008972 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 395494008973 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 395494008974 trimer interface [polypeptide binding]; other site 395494008975 putative metal binding site [ion binding]; other site 395494008976 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 395494008977 active site 395494008978 substrate binding pocket [chemical binding]; other site 395494008979 dimer interface [polypeptide binding]; other site 395494008980 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 395494008981 active site 395494008982 substrate binding site [chemical binding]; other site 395494008983 catalytic site [active] 395494008984 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 395494008985 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 395494008986 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 395494008987 HIGH motif; other site 395494008988 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 395494008989 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395494008990 active site 395494008991 KMSKS motif; other site 395494008992 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 395494008993 tRNA binding surface [nucleotide binding]; other site 395494008994 Lipopolysaccharide-assembly; Region: LptE; cl01125 395494008995 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 395494008996 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 395494008997 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 395494008998 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 395494008999 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 395494009000 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395494009001 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 395494009002 DsbD alpha interface [polypeptide binding]; other site 395494009003 catalytic residues [active] 395494009004 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 395494009005 trimer interface [polypeptide binding]; other site 395494009006 active site 395494009007 dimer interface [polypeptide binding]; other site 395494009008 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 395494009009 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 395494009010 carboxyltransferase (CT) interaction site; other site 395494009011 biotinylation site [posttranslational modification]; other site 395494009012 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 395494009013 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395494009014 ATP-grasp domain; Region: ATP-grasp_4; cl03087 395494009015 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 395494009016 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 395494009017 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 395494009018 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 395494009019 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 395494009020 Helix-turn-helix domains; Region: HTH; cl00088 395494009021 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 395494009022 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395494009023 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 395494009024 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 395494009025 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 395494009026 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 395494009027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 395494009028 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 395494009029 AAA domain; Region: AAA_33; pfam13671 395494009030 ATP-binding site [chemical binding]; other site 395494009031 Gluconate-6-phosphate binding site [chemical binding]; other site 395494009032 Predicted methyltransferases [General function prediction only]; Region: COG0313 395494009033 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 395494009034 putative ligand binding site [chemical binding]; other site 395494009035 Restriction endonuclease; Region: Mrr_cat; cl00516 395494009036 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 395494009037 dimer interface [polypeptide binding]; other site 395494009038 active site 395494009039 outer membrane lipoprotein; Provisional; Region: PRK11023 395494009040 BON domain; Region: BON; cl02771 395494009041 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395494009042 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 395494009043 active site 395494009044 nucleotide binding site [chemical binding]; other site 395494009045 HIGH motif; other site 395494009046 KMSKS motif; other site 395494009047 Protein of unknown function (DUF971); Region: DUF971; cl01414 395494009048 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 395494009049 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 395494009050 S-adenosylmethionine binding site [chemical binding]; other site 395494009051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494009052 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 395494009053 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 395494009054 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 395494009055 PhnA protein; Region: PhnA; pfam03831 395494009056 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 395494009057 active site 395494009058 Tim44-like domain; Region: Tim44; cl09208 395494009059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 395494009060 SCP-2 sterol transfer family; Region: SCP2; cl01225 395494009061 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 395494009062 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 395494009063 THUMP domain; Region: THUMP; cl12076 395494009064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494009065 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 395494009066 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395494009067 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 395494009068 P-loop; other site 395494009069 Magnesium ion binding site [ion binding]; other site 395494009070 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 395494009071 Magnesium ion binding site [ion binding]; other site 395494009072 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395494009073 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 395494009074 dimer interface [polypeptide binding]; other site 395494009075 phosphorylation site [posttranslational modification] 395494009076 Sulfatase; Region: Sulfatase; cl10460 395494009077 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 395494009078 ATP binding site [chemical binding]; other site 395494009079 Mg2+ binding site [ion binding]; other site 395494009080 G-X-G motif; other site 395494009081 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 395494009082 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; cl07370 395494009083 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 395494009084 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 395494009085 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 395494009086 ATP binding site [chemical binding]; other site 395494009087 putative Mg++ binding site [ion binding]; other site 395494009088 HsdM N-terminal domain; Region: HsdM_N; pfam12161 395494009089 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 395494009090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494009091 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494009092 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 395494009093 TniQ; Region: TniQ; pfam06527 395494009094 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 395494009095 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 395494009096 non-specific DNA binding site [nucleotide binding]; other site 395494009097 salt bridge; other site 395494009098 sequence-specific DNA binding site [nucleotide binding]; other site 395494009099 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 395494009100 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 395494009101 Walker A/P-loop; other site 395494009102 ATP binding site [chemical binding]; other site 395494009103 Q-loop/lid; other site 395494009104 ABC transporter signature motif; other site 395494009105 Walker B; other site 395494009106 D-loop; other site 395494009107 H-loop/switch region; other site 395494009108 NMT1-like family; Region: NMT1_2; cl15260 395494009109 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 395494009110 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 395494009111 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 395494009112 dimer interface [polypeptide binding]; other site 395494009113 conserved gate region; other site 395494009114 putative PBP binding loops; other site 395494009115 ABC-ATPase subunit interface; other site 395494009116 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395494009117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494009118 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395494009119 Helix-turn-helix domains; Region: HTH; cl00088 395494009120 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 395494009121 dimerization interface [polypeptide binding]; other site 395494009122 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 395494009123 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 395494009124 glutaminase active site [active] 395494009125 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 395494009126 dimer interface [polypeptide binding]; other site 395494009127 active site 395494009128 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 395494009129 dimer interface [polypeptide binding]; other site 395494009130 active site 395494009131 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 395494009132 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 395494009133 Substrate binding site; other site 395494009134 Mg++ binding site; other site 395494009135 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 395494009136 active site 395494009137 substrate binding site [chemical binding]; other site 395494009138 CoA binding site [chemical binding]; other site 395494009139 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 395494009140 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 395494009141 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 395494009142 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 395494009143 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 395494009144 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 395494009145 alpha subunit interaction interface [polypeptide binding]; other site 395494009146 Walker A motif; other site 395494009147 ATP binding site [chemical binding]; other site 395494009148 Walker B motif; other site 395494009149 inhibitor binding site; inhibition site 395494009150 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395494009151 ATP synthase; Region: ATP-synt; cl00365 395494009152 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 395494009153 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 395494009154 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 395494009155 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 395494009156 beta subunit interaction interface [polypeptide binding]; other site 395494009157 Walker A motif; other site 395494009158 ATP binding site [chemical binding]; other site 395494009159 Walker B motif; other site 395494009160 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395494009161 Plant ATP synthase F0; Region: YMF19; cl07975 395494009162 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 395494009163 Plant ATP synthase F0; Region: YMF19; cl07975 395494009164 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 395494009165 ATP synthase subunit C; Region: ATP-synt_C; cl00466 395494009166 ATP synthase A chain; Region: ATP-synt_A; cl00413 395494009167 ParB-like partition proteins; Region: parB_part; TIGR00180 395494009168 ParB-like nuclease domain; Region: ParBc; cl02129 395494009169 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395494009170 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 395494009171 P-loop; other site 395494009172 Magnesium ion binding site [ion binding]; other site 395494009173 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 395494009174 Magnesium ion binding site [ion binding]; other site 395494009175 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 395494009176 S-adenosylmethionine binding site [chemical binding]; other site 395494009177 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 395494009178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494009179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395494009180 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 395494009181 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 395494009182 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 395494009183 trmE is a tRNA modification GTPase; Region: trmE; cd04164 395494009184 G1 box; other site 395494009185 GTP/Mg2+ binding site [chemical binding]; other site 395494009186 Switch I region; other site 395494009187 G2 box; other site 395494009188 Switch II region; other site 395494009189 G3 box; other site 395494009190 G4 box; other site 395494009191 G5 box; other site 395494009192 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 395494009193 membrane protein insertase; Provisional; Region: PRK01318 395494009194 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 395494009195 Haemolytic domain; Region: Haemolytic; cl00506