-- dump date 20140619_061547 -- class Genbank::misc_feature -- table misc_feature_note -- id note 651182000001 DNA polymerase III subunit beta; Validated; Region: PRK05643 651182000002 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 651182000003 putative DNA binding surface [nucleotide binding]; other site 651182000004 dimer interface [polypeptide binding]; other site 651182000005 beta-clamp/clamp loader binding surface; other site 651182000006 beta-clamp/translesion DNA polymerase binding surface; other site 651182000007 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 651182000008 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 651182000009 ATP binding site [chemical binding]; other site 651182000010 Mg2+ binding site [ion binding]; other site 651182000011 G-X-G motif; other site 651182000012 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 651182000013 anchoring element; other site 651182000014 dimer interface [polypeptide binding]; other site 651182000015 ATP binding site [chemical binding]; other site 651182000016 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 651182000017 active site 651182000018 putative metal-binding site [ion binding]; other site 651182000019 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 651182000020 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 651182000021 Cache domain; Region: Cache_1; pfam02743 651182000022 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 651182000023 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182000024 putative active site [active] 651182000025 heme pocket [chemical binding]; other site 651182000026 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 651182000027 dimer interface [polypeptide binding]; other site 651182000028 phosphorylation site [posttranslational modification] 651182000029 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 651182000030 ATP binding site [chemical binding]; other site 651182000031 Mg2+ binding site [ion binding]; other site 651182000032 G-X-G motif; other site 651182000033 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182000034 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182000035 active site 651182000036 phosphorylation site [posttranslational modification] 651182000037 intermolecular recognition site; other site 651182000038 dimerization interface [polypeptide binding]; other site 651182000039 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182000040 dimer interface [polypeptide binding]; other site 651182000041 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 651182000042 putative CheW interface [polypeptide binding]; other site 651182000043 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 651182000044 Precorrin-8X methylmutase; Region: CbiC; pfam02570 651182000045 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 651182000046 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182000047 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 651182000048 catalytic triad [active] 651182000049 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 651182000050 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 651182000051 homodimer interaction site [polypeptide binding]; other site 651182000052 cofactor binding site; other site 651182000053 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 651182000054 nucleotide binding site [chemical binding]; other site 651182000055 substrate binding site [chemical binding]; other site 651182000056 Transcriptional regulator PadR-like family; Region: PadR; cl17335 651182000057 Predicted transcriptional regulators [Transcription]; Region: COG1695 651182000058 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 651182000059 EamA-like transporter family; Region: EamA; pfam00892 651182000060 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 651182000061 HsdM N-terminal domain; Region: HsdM_N; pfam12161 651182000062 Methyltransferase domain; Region: Methyltransf_26; pfam13659 651182000063 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 651182000064 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 651182000065 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 651182000066 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 651182000067 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 651182000068 ATP binding site [chemical binding]; other site 651182000069 putative Mg++ binding site [ion binding]; other site 651182000070 hypothetical protein; Reviewed; Region: PRK00024 651182000071 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 651182000072 MPN+ (JAMM) motif; other site 651182000073 Zinc-binding site [ion binding]; other site 651182000074 TIGR04076 family protein; Region: TIGR04076 651182000075 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 651182000076 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 651182000077 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 651182000078 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 651182000079 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 651182000080 active site 651182000081 Isochorismatase family; Region: Isochorismatase; pfam00857 651182000082 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 651182000083 catalytic triad [active] 651182000084 metal binding site [ion binding]; metal-binding site 651182000085 conserved cis-peptide bond; other site 651182000086 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 651182000087 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182000088 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 651182000089 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 651182000090 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 651182000091 S-adenosylmethionine binding site [chemical binding]; other site 651182000092 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_10; cd08865 651182000093 putative hydrophobic ligand binding site [chemical binding]; other site 651182000094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182000095 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 651182000096 NAD(P) binding site [chemical binding]; other site 651182000097 active site 651182000098 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 651182000099 Protein of unknown function (DUF523); Region: DUF523; pfam04463 651182000100 Uncharacterized conserved protein [Function unknown]; Region: COG3272 651182000101 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 651182000102 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 651182000103 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 651182000104 putative NAD(P) binding site [chemical binding]; other site 651182000105 putative active site [active] 651182000106 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 651182000107 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 651182000108 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 651182000109 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 651182000110 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 651182000111 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 651182000112 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 651182000113 Predicted amidohydrolase [General function prediction only]; Region: COG0388 651182000114 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 651182000115 active site 651182000116 catalytic triad [active] 651182000117 dimer interface [polypeptide binding]; other site 651182000118 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 651182000119 active site 651182000120 catalytic triad [active] 651182000121 oxyanion hole [active] 651182000122 switch loop; other site 651182000123 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 651182000124 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 651182000125 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 651182000126 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 651182000127 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 651182000128 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 651182000129 active site residue [active] 651182000130 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 651182000131 active site residue [active] 651182000132 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 651182000133 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 651182000134 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182000135 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 651182000136 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 651182000137 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 651182000138 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 651182000139 FtsX-like permease family; Region: FtsX; pfam02687 651182000140 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 651182000141 FtsX-like permease family; Region: FtsX; pfam02687 651182000142 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 651182000143 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 651182000144 Walker A/P-loop; other site 651182000145 ATP binding site [chemical binding]; other site 651182000146 Q-loop/lid; other site 651182000147 ABC transporter signature motif; other site 651182000148 Walker B; other site 651182000149 D-loop; other site 651182000150 H-loop/switch region; other site 651182000151 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 651182000152 endonuclease IV; Provisional; Region: PRK01060 651182000153 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 651182000154 AP (apurinic/apyrimidinic) site pocket; other site 651182000155 DNA interaction; other site 651182000156 Metal-binding active site; metal-binding site 651182000157 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 651182000158 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 651182000159 N-terminal plug; other site 651182000160 ligand-binding site [chemical binding]; other site 651182000161 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 651182000162 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 651182000163 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 651182000164 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 651182000165 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 651182000166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 651182000167 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 651182000168 S-adenosylmethionine binding site [chemical binding]; other site 651182000169 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 651182000170 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 651182000171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 651182000172 Transposase; Region: DEDD_Tnp_IS110; pfam01548 651182000173 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 651182000174 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 651182000175 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 651182000176 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 651182000177 ThiC family; Region: ThiC; pfam01964 651182000178 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 651182000179 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 651182000180 thiamine phosphate binding site [chemical binding]; other site 651182000181 active site 651182000182 pyrophosphate binding site [ion binding]; other site 651182000183 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; cl17196 651182000184 ATP binding site [chemical binding]; other site 651182000185 substrate interface [chemical binding]; other site 651182000186 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 651182000187 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 651182000188 FeS/SAM binding site; other site 651182000189 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 651182000190 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 651182000191 ThiS interaction site; other site 651182000192 putative active site [active] 651182000193 tetramer interface [polypeptide binding]; other site 651182000194 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 651182000195 thiS-thiF/thiG interaction site; other site 651182000196 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 651182000197 Tetratricopeptide repeat; Region: TPR_18; pfam13512 651182000198 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 651182000199 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182000200 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 651182000201 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 651182000202 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 651182000203 catalytic residues [active] 651182000204 Rubrerythrin [Energy production and conversion]; Region: COG1592 651182000205 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 651182000206 binuclear metal center [ion binding]; other site 651182000207 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 651182000208 iron binding site [ion binding]; other site 651182000209 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 651182000210 Sel1-like repeats; Region: SEL1; smart00671 651182000211 Uncharacterized conserved protein [Function unknown]; Region: COG1262 651182000212 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 651182000213 LPP20 lipoprotein; Region: LPP20; cl15824 651182000214 Protein of unknown function DUF89; Region: DUF89; cl15397 651182000215 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; cl17257 651182000216 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 651182000217 DNA binding residues [nucleotide binding] 651182000218 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 651182000219 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 651182000220 active site 651182000221 FMN binding site [chemical binding]; other site 651182000222 substrate binding site [chemical binding]; other site 651182000223 putative catalytic residue [active] 651182000224 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 651182000225 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 651182000226 Homeodomain-like domain; Region: HTH_23; pfam13384 651182000227 Winged helix-turn helix; Region: HTH_29; pfam13551 651182000228 DDE superfamily endonuclease; Region: DDE_3; pfam13358 651182000229 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 651182000230 G1 box; other site 651182000231 GTP/Mg2+ binding site [chemical binding]; other site 651182000232 G2 box; other site 651182000233 Switch I region; other site 651182000234 G3 box; other site 651182000235 Switch II region; other site 651182000236 G4 box; other site 651182000237 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 651182000238 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 651182000239 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 651182000240 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 651182000241 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 651182000242 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 651182000243 N-acetyl-D-glucosamine binding site [chemical binding]; other site 651182000244 catalytic residue [active] 651182000245 catalytic residue [active] 651182000246 Caspase domain; Region: Peptidase_C14; pfam00656 651182000247 substrate pocket [chemical binding]; other site 651182000248 active site 651182000249 proteolytic cleavage site; other site 651182000250 dimer interface [polypeptide binding]; other site 651182000251 Uncharacterized conserved protein [Function unknown]; Region: COG1262 651182000252 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 651182000253 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 651182000254 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 651182000255 ligand binding site [chemical binding]; other site 651182000256 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 651182000257 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 651182000258 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 651182000259 DNA binding residues [nucleotide binding] 651182000260 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 651182000261 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 651182000262 P-loop; other site 651182000263 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 651182000264 HDOD domain; Region: HDOD; pfam08668 651182000265 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182000266 Zn2+ binding site [ion binding]; other site 651182000267 Mg2+ binding site [ion binding]; other site 651182000268 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182000269 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 651182000270 dimer interface [polypeptide binding]; other site 651182000271 phosphorylation site [posttranslational modification] 651182000272 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 651182000273 ATP binding site [chemical binding]; other site 651182000274 Mg2+ binding site [ion binding]; other site 651182000275 G-X-G motif; other site 651182000276 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 651182000277 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 651182000278 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 651182000279 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 651182000280 reductive dehalogenase; Region: RDH; TIGR02486 651182000281 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 651182000282 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 651182000283 GAF domain; Region: GAF; pfam01590 651182000284 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 651182000285 Walker A motif; other site 651182000286 ATP binding site [chemical binding]; other site 651182000287 Walker B motif; other site 651182000288 arginine finger; other site 651182000289 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 651182000290 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 651182000291 ACS interaction site; other site 651182000292 CODH interaction site; other site 651182000293 metal cluster binding site [ion binding]; other site 651182000294 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 651182000295 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 651182000296 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 651182000297 DNA binding site [nucleotide binding] 651182000298 active site 651182000299 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 651182000300 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 651182000301 S1 domain; Region: S1_2; pfam13509 651182000302 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 651182000303 metal binding triad; other site 651182000304 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 651182000305 agmatinase; Region: agmatinase; TIGR01230 651182000306 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 651182000307 putative active site [active] 651182000308 Mn binding site [ion binding]; other site 651182000309 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 651182000310 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 651182000311 dimer interface [polypeptide binding]; other site 651182000312 active site 651182000313 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 651182000314 catalytic residues [active] 651182000315 substrate binding site [chemical binding]; other site 651182000316 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 651182000317 arginine decarboxylase; Provisional; Region: PRK05354 651182000318 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 651182000319 dimer interface [polypeptide binding]; other site 651182000320 active site 651182000321 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 651182000322 catalytic residues [active] 651182000323 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 651182000324 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182000325 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 651182000326 Walker A motif; other site 651182000327 ATP binding site [chemical binding]; other site 651182000328 Walker B motif; other site 651182000329 arginine finger; other site 651182000330 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 651182000331 Response regulator receiver domain; Region: Response_reg; pfam00072 651182000332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182000333 active site 651182000334 phosphorylation site [posttranslational modification] 651182000335 intermolecular recognition site; other site 651182000336 dimerization interface [polypeptide binding]; other site 651182000337 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 651182000338 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182000339 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 651182000340 dimer interface [polypeptide binding]; other site 651182000341 phosphorylation site [posttranslational modification] 651182000342 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 651182000343 ATP binding site [chemical binding]; other site 651182000344 Mg2+ binding site [ion binding]; other site 651182000345 G-X-G motif; other site 651182000346 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 651182000347 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182000348 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 651182000349 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182000350 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 651182000351 MarR family; Region: MarR; pfam01047 651182000352 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 651182000353 Coenzyme A transferase; Region: CoA_trans; cl17247 651182000354 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 651182000355 Ubiquitin-like proteins; Region: UBQ; cl00155 651182000356 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 651182000357 DctM-like transporters; Region: DctM; pfam06808 651182000358 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 651182000359 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 651182000360 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 651182000361 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 651182000362 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 651182000363 inhibitor-cofactor binding pocket; inhibition site 651182000364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182000365 catalytic residue [active] 651182000366 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 651182000367 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 651182000368 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182000369 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 651182000370 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182000371 putative active site [active] 651182000372 heme pocket [chemical binding]; other site 651182000373 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 651182000374 Walker A motif; other site 651182000375 ATP binding site [chemical binding]; other site 651182000376 Walker B motif; other site 651182000377 arginine finger; other site 651182000378 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182000379 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 651182000380 Methyltransferase domain; Region: Methyltransf_32; pfam13679 651182000381 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 651182000382 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 651182000383 metal-binding site [ion binding] 651182000384 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 651182000385 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 651182000386 metal-binding site [ion binding] 651182000387 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 651182000388 Soluble P-type ATPase [General function prediction only]; Region: COG4087 651182000389 Predicted permeases [General function prediction only]; Region: COG0679 651182000390 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 651182000391 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182000392 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 651182000393 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 651182000394 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182000395 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 651182000396 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; cd00198 651182000397 metal ion-dependent adhesion site (MIDAS); other site 651182000398 MoxR-like ATPases [General function prediction only]; Region: COG0714 651182000399 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 651182000400 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 651182000401 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 651182000402 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 651182000403 dimer interface [polypeptide binding]; other site 651182000404 active site 651182000405 glycine loop; other site 651182000406 BssC/TutF protein; Region: BssC_TutF; pfam08201 651182000407 [benzylsuccinate synthase]-activating enzyme; Region: rSAM_BssD; TIGR04003 651182000408 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 651182000409 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 651182000410 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 651182000411 FeS/SAM binding site; other site 651182000412 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 651182000413 DUF35 OB-fold domain; Region: DUF35; pfam01796 651182000414 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 651182000415 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 651182000416 active site 651182000417 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 651182000418 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182000419 dimer interface [polypeptide binding]; other site 651182000420 putative CheW interface [polypeptide binding]; other site 651182000421 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 651182000422 DUF35 OB-fold domain; Region: DUF35; pfam01796 651182000423 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 651182000424 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 651182000425 active site 651182000426 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 651182000427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182000428 NAD(P) binding site [chemical binding]; other site 651182000429 active site 651182000430 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 651182000431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182000432 NAD(P) binding site [chemical binding]; other site 651182000433 active site 651182000434 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 651182000435 CoA-transferase family III; Region: CoA_transf_3; pfam02515 651182000436 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 651182000437 CoA-transferase family III; Region: CoA_transf_3; pfam02515 651182000438 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 651182000439 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 651182000440 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 651182000441 active site 651182000442 enoyl-CoA hydratase; Provisional; Region: PRK06494 651182000443 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 651182000444 substrate binding site [chemical binding]; other site 651182000445 oxyanion hole (OAH) forming residues; other site 651182000446 trimer interface [polypeptide binding]; other site 651182000447 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 651182000448 Ligand binding site [chemical binding]; other site 651182000449 Electron transfer flavoprotein domain; Region: ETF; pfam01012 651182000450 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 651182000451 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 651182000452 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 651182000453 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182000454 Cysteine-rich domain; Region: CCG; pfam02754 651182000455 Cysteine-rich domain; Region: CCG; pfam02754 651182000456 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 651182000457 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 651182000458 conserved cys residue [active] 651182000459 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 651182000460 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 651182000461 DctM-like transporters; Region: DctM; pfam06808 651182000462 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 651182000463 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 651182000464 Iron-sulfur protein interface; other site 651182000465 proximal heme binding site [chemical binding]; other site 651182000466 distal heme binding site [chemical binding]; other site 651182000467 dimer interface [polypeptide binding]; other site 651182000468 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 651182000469 L-aspartate oxidase; Provisional; Region: PRK06175 651182000470 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 651182000471 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 651182000472 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 651182000473 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 651182000474 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182000475 acyl-activating enzyme (AAE) consensus motif; other site 651182000476 AMP binding site [chemical binding]; other site 651182000477 active site 651182000478 CoA binding site [chemical binding]; other site 651182000479 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 651182000480 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182000481 dimer interface [polypeptide binding]; other site 651182000482 putative CheW interface [polypeptide binding]; other site 651182000483 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 651182000484 trimer interface [polypeptide binding]; other site 651182000485 active site 651182000486 substrate binding site [chemical binding]; other site 651182000487 CoA binding site [chemical binding]; other site 651182000488 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 651182000489 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 651182000490 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 651182000491 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 651182000492 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 651182000493 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 651182000494 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 651182000495 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 651182000496 substrate binding site [chemical binding]; other site 651182000497 oxyanion hole (OAH) forming residues; other site 651182000498 trimer interface [polypeptide binding]; other site 651182000499 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 651182000500 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 651182000501 dimer interface [polypeptide binding]; other site 651182000502 active site 651182000503 Protein of unknown function DUF262; Region: DUF262; pfam03235 651182000504 Uncharacterized conserved protein [Function unknown]; Region: COG1479 651182000505 Uncharacterized conserved protein [Function unknown]; Region: COG4938 651182000506 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182000507 Walker A/P-loop; other site 651182000508 ATP binding site [chemical binding]; other site 651182000509 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 651182000510 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 651182000511 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 651182000512 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 651182000513 non-specific DNA binding site [nucleotide binding]; other site 651182000514 salt bridge; other site 651182000515 sequence-specific DNA binding site [nucleotide binding]; other site 651182000516 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 651182000517 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 651182000518 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 651182000519 ATP binding site [chemical binding]; other site 651182000520 putative Mg++ binding site [ion binding]; other site 651182000521 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_3; pfam13366 651182000522 HsdM N-terminal domain; Region: HsdM_N; pfam12161 651182000523 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 651182000524 Methyltransferase domain; Region: Methyltransf_26; pfam13659 651182000525 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 651182000526 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 651182000527 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 651182000528 AAA domain; Region: AAA_21; pfam13304 651182000529 AAA domain; Region: AAA_21; pfam13304 651182000530 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 651182000531 Transposase, Mutator family; Region: Transposase_mut; pfam00872 651182000532 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 651182000533 Methyltransferase domain; Region: Methyltransf_31; pfam13847 651182000534 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 651182000535 S-adenosylmethionine binding site [chemical binding]; other site 651182000536 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 651182000537 S-adenosylmethionine binding site [chemical binding]; other site 651182000538 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 651182000539 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 651182000540 TPR repeat; Region: TPR_11; pfam13414 651182000541 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 651182000542 binding surface 651182000543 TPR motif; other site 651182000544 TPR repeat; Region: TPR_11; pfam13414 651182000545 Tetratricopeptide repeat; Region: TPR_16; pfam13432 651182000546 Protein of unknown function DUF89; Region: DUF89; cl15397 651182000547 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 651182000548 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 651182000549 conserved cys residue [active] 651182000550 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 651182000551 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 651182000552 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 651182000553 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 651182000554 N-carbamolyputrescine amidase; Region: PLN02747 651182000555 active site 651182000556 catalytic triad [active] 651182000557 dimer interface [polypeptide binding]; other site 651182000558 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 651182000559 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 651182000560 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 651182000561 active site 651182000562 DNA binding site [nucleotide binding] 651182000563 Int/Topo IB signature motif; other site 651182000564 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 651182000565 active site 651182000566 DNA binding site [nucleotide binding] 651182000567 Int/Topo IB signature motif; other site 651182000568 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 651182000569 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 651182000570 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 651182000571 DNA binding site [nucleotide binding] 651182000572 active site 651182000573 Int/Topo IB signature motif; other site 651182000574 catalytic residues [active] 651182000575 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 651182000576 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 651182000577 Ligand Binding Site [chemical binding]; other site 651182000578 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 651182000579 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 651182000580 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 651182000581 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 651182000582 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 651182000583 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12658 651182000584 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 651182000585 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 651182000586 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 651182000587 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 651182000588 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 651182000589 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 651182000590 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182000591 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 651182000592 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 651182000593 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 651182000594 active site 651182000595 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 651182000596 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 651182000597 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 651182000598 N-terminal plug; other site 651182000599 ligand-binding site [chemical binding]; other site 651182000600 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_cladeC; cd03378 651182000601 active site clefts [active] 651182000602 zinc binding site [ion binding]; other site 651182000603 dimer interface [polypeptide binding]; other site 651182000604 Major Facilitator Superfamily; Region: MFS_1; pfam07690 651182000605 Predicted permease; Region: DUF318; cl17795 651182000606 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 651182000607 dimerization interface [polypeptide binding]; other site 651182000608 putative DNA binding site [nucleotide binding]; other site 651182000609 putative Zn2+ binding site [ion binding]; other site 651182000610 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 651182000611 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 651182000612 active site 651182000613 putative substrate binding pocket [chemical binding]; other site 651182000614 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 651182000615 dimerization interface [polypeptide binding]; other site 651182000616 active site 651182000617 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 651182000618 putative catalytic site [active] 651182000619 putative metal binding site [ion binding]; other site 651182000620 putative phosphate binding site [ion binding]; other site 651182000621 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 651182000622 Ligand Binding Site [chemical binding]; other site 651182000623 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 651182000624 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 651182000625 tetramer interface [polypeptide binding]; other site 651182000626 heme binding pocket [chemical binding]; other site 651182000627 NADPH binding site [chemical binding]; other site 651182000628 Ferredoxin [Energy production and conversion]; Region: COG1146 651182000629 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 651182000630 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 651182000631 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 651182000632 dimer interface [polypeptide binding]; other site 651182000633 PYR/PP interface [polypeptide binding]; other site 651182000634 TPP binding site [chemical binding]; other site 651182000635 substrate binding site [chemical binding]; other site 651182000636 2-ketoisovalerate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11864 651182000637 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 651182000638 TPP-binding site [chemical binding]; other site 651182000639 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 651182000640 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 651182000641 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 651182000642 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 651182000643 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 651182000644 molybdopterin cofactor binding site; other site 651182000645 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 651182000646 molybdopterin cofactor binding site; other site 651182000647 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 651182000648 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 651182000649 Coenzyme A binding pocket [chemical binding]; other site 651182000650 isocitrate dehydrogenase; Validated; Region: PRK08299 651182000651 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 651182000652 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 651182000653 Walker A/P-loop; other site 651182000654 ATP binding site [chemical binding]; other site 651182000655 Q-loop/lid; other site 651182000656 ABC transporter signature motif; other site 651182000657 Walker B; other site 651182000658 D-loop; other site 651182000659 H-loop/switch region; other site 651182000660 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 651182000661 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 651182000662 Walker A/P-loop; other site 651182000663 ATP binding site [chemical binding]; other site 651182000664 Q-loop/lid; other site 651182000665 ABC transporter signature motif; other site 651182000666 Walker B; other site 651182000667 D-loop; other site 651182000668 H-loop/switch region; other site 651182000669 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 651182000670 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 651182000671 TM-ABC transporter signature motif; other site 651182000672 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 651182000673 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 651182000674 TM-ABC transporter signature motif; other site 651182000675 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 651182000676 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 651182000677 dimerization interface [polypeptide binding]; other site 651182000678 ligand binding site [chemical binding]; other site 651182000679 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 651182000680 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 651182000681 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182000682 homodimer interface [polypeptide binding]; other site 651182000683 catalytic residue [active] 651182000684 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 651182000685 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 651182000686 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 651182000687 active site 651182000688 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 651182000689 iron binding site [ion binding]; other site 651182000690 Rubredoxin [Energy production and conversion]; Region: COG1773 651182000691 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 651182000692 iron binding site [ion binding]; other site 651182000693 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 651182000694 active site residue [active] 651182000695 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 651182000696 diiron binding motif [ion binding]; other site 651182000697 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 651182000698 Uncharacterized conserved protein [Function unknown]; Region: COG0398 651182000699 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 651182000700 mercuric reductase; Validated; Region: PRK06370 651182000701 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 651182000702 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 651182000703 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 651182000704 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 651182000705 Rubrerythrin [Energy production and conversion]; Region: COG1592 651182000706 binuclear metal center [ion binding]; other site 651182000707 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 651182000708 iron binding site [ion binding]; other site 651182000709 pyrroline-5-carboxylate reductase; Region: PLN02688 651182000710 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 651182000711 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 651182000712 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; cl15377 651182000713 Transcriptional regulators [Transcription]; Region: MarR; COG1846 651182000714 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 651182000715 dimerization interface [polypeptide binding]; other site 651182000716 putative Zn2+ binding site [ion binding]; other site 651182000717 putative DNA binding site [nucleotide binding]; other site 651182000718 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 651182000719 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 651182000720 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 651182000721 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 651182000722 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 651182000723 trimerization site [polypeptide binding]; other site 651182000724 active site 651182000725 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 651182000726 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 651182000727 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 651182000728 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 651182000729 catalytic residue [active] 651182000730 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 651182000731 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 651182000732 Cysteine-rich domain; Region: CCG; pfam02754 651182000733 Cysteine-rich domain; Region: CCG; pfam02754 651182000734 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 651182000735 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 651182000736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182000737 dimer interface [polypeptide binding]; other site 651182000738 serine O-acetyltransferase; Region: cysE; TIGR01172 651182000739 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 651182000740 trimer interface [polypeptide binding]; other site 651182000741 active site 651182000742 substrate binding site [chemical binding]; other site 651182000743 CoA binding site [chemical binding]; other site 651182000744 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 651182000745 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 651182000746 non-specific DNA binding site [nucleotide binding]; other site 651182000747 salt bridge; other site 651182000748 sequence-specific DNA binding site [nucleotide binding]; other site 651182000749 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 651182000750 Clp amino terminal domain; Region: Clp_N; pfam02861 651182000751 Clp amino terminal domain; Region: Clp_N; pfam02861 651182000752 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 651182000753 Walker A motif; other site 651182000754 ATP binding site [chemical binding]; other site 651182000755 Walker B motif; other site 651182000756 arginine finger; other site 651182000757 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 651182000758 Walker A motif; other site 651182000759 ATP binding site [chemical binding]; other site 651182000760 Walker B motif; other site 651182000761 arginine finger; other site 651182000762 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 651182000763 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 651182000764 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 651182000765 ATP binding site [chemical binding]; other site 651182000766 putative Mg++ binding site [ion binding]; other site 651182000767 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 651182000768 nucleotide binding region [chemical binding]; other site 651182000769 ATP-binding site [chemical binding]; other site 651182000770 Helicase associated domain (HA2); Region: HA2; pfam04408 651182000771 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 651182000772 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 651182000773 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 651182000774 nudix motif; other site 651182000775 HAMP domain; Region: HAMP; pfam00672 651182000776 PAS domain; Region: PAS_9; pfam13426 651182000777 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 651182000778 dimer interface [polypeptide binding]; other site 651182000779 phosphorylation site [posttranslational modification] 651182000780 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 651182000781 ATP binding site [chemical binding]; other site 651182000782 Mg2+ binding site [ion binding]; other site 651182000783 G-X-G motif; other site 651182000784 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182000785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182000786 active site 651182000787 phosphorylation site [posttranslational modification] 651182000788 intermolecular recognition site; other site 651182000789 dimerization interface [polypeptide binding]; other site 651182000790 Response regulator receiver domain; Region: Response_reg; pfam00072 651182000791 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182000792 active site 651182000793 phosphorylation site [posttranslational modification] 651182000794 intermolecular recognition site; other site 651182000795 dimerization interface [polypeptide binding]; other site 651182000796 PAS domain S-box; Region: sensory_box; TIGR00229 651182000797 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182000798 putative active site [active] 651182000799 heme pocket [chemical binding]; other site 651182000800 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182000801 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 651182000802 dimer interface [polypeptide binding]; other site 651182000803 phosphorylation site [posttranslational modification] 651182000804 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 651182000805 ATP binding site [chemical binding]; other site 651182000806 Mg2+ binding site [ion binding]; other site 651182000807 G-X-G motif; other site 651182000808 Response regulator receiver domain; Region: Response_reg; pfam00072 651182000809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182000810 active site 651182000811 phosphorylation site [posttranslational modification] 651182000812 intermolecular recognition site; other site 651182000813 dimerization interface [polypeptide binding]; other site 651182000814 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182000815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182000816 active site 651182000817 phosphorylation site [posttranslational modification] 651182000818 intermolecular recognition site; other site 651182000819 dimerization interface [polypeptide binding]; other site 651182000820 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 651182000821 Walker A motif; other site 651182000822 ATP binding site [chemical binding]; other site 651182000823 Walker B motif; other site 651182000824 arginine finger; other site 651182000825 Cache domain; Region: Cache_1; pfam02743 651182000826 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182000827 dimer interface [polypeptide binding]; other site 651182000828 putative CheW interface [polypeptide binding]; other site 651182000829 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 651182000830 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 651182000831 N-terminal plug; other site 651182000832 ligand-binding site [chemical binding]; other site 651182000833 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 651182000834 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 651182000835 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 651182000836 dimerization interface [polypeptide binding]; other site 651182000837 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 651182000838 dimer interface [polypeptide binding]; other site 651182000839 phosphorylation site [posttranslational modification] 651182000840 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 651182000841 ATP binding site [chemical binding]; other site 651182000842 Mg2+ binding site [ion binding]; other site 651182000843 G-X-G motif; other site 651182000844 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182000845 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182000846 active site 651182000847 phosphorylation site [posttranslational modification] 651182000848 intermolecular recognition site; other site 651182000849 dimerization interface [polypeptide binding]; other site 651182000850 Response regulator receiver domain; Region: Response_reg; pfam00072 651182000851 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182000852 active site 651182000853 phosphorylation site [posttranslational modification] 651182000854 intermolecular recognition site; other site 651182000855 dimerization interface [polypeptide binding]; other site 651182000856 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 651182000857 putative binding surface; other site 651182000858 active site 651182000859 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182000860 Response regulator receiver domain; Region: Response_reg; pfam00072 651182000861 active site 651182000862 phosphorylation site [posttranslational modification] 651182000863 intermolecular recognition site; other site 651182000864 dimerization interface [polypeptide binding]; other site 651182000865 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 651182000866 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182000867 putative active site [active] 651182000868 heme pocket [chemical binding]; other site 651182000869 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182000870 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182000871 metal binding site [ion binding]; metal-binding site 651182000872 active site 651182000873 I-site; other site 651182000874 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 651182000875 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 651182000876 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 651182000877 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182000878 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182000879 active site 651182000880 phosphorylation site [posttranslational modification] 651182000881 intermolecular recognition site; other site 651182000882 dimerization interface [polypeptide binding]; other site 651182000883 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 651182000884 FAD binding site [chemical binding]; other site 651182000885 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 651182000886 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 651182000887 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 651182000888 Predicted membrane protein [Function unknown]; Region: COG4881 651182000889 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 651182000890 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 651182000891 transmembrane helices; other site 651182000892 TrkA-C domain; Region: TrkA_C; pfam02080 651182000893 TrkA-C domain; Region: TrkA_C; pfam02080 651182000894 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 651182000895 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 651182000896 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 651182000897 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 651182000898 dimer interface [polypeptide binding]; other site 651182000899 PYR/PP interface [polypeptide binding]; other site 651182000900 TPP binding site [chemical binding]; other site 651182000901 substrate binding site [chemical binding]; other site 651182000902 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 651182000903 TPP-binding site; other site 651182000904 4Fe-4S binding domain; Region: Fer4; pfam00037 651182000905 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 651182000906 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 651182000907 ZIP Zinc transporter; Region: Zip; pfam02535 651182000908 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 651182000909 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 651182000910 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 651182000911 active site 651182000912 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 651182000913 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 651182000914 FAD binding pocket [chemical binding]; other site 651182000915 conserved FAD binding motif [chemical binding]; other site 651182000916 phosphate binding motif [ion binding]; other site 651182000917 beta-alpha-beta structure motif; other site 651182000918 NAD binding pocket [chemical binding]; other site 651182000919 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 651182000920 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 651182000921 heterodimer interface [polypeptide binding]; other site 651182000922 active site 651182000923 FMN binding site [chemical binding]; other site 651182000924 homodimer interface [polypeptide binding]; other site 651182000925 substrate binding site [chemical binding]; other site 651182000926 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 651182000927 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 651182000928 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 651182000929 active site 651182000930 catalytic site [active] 651182000931 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 651182000932 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 651182000933 pyruvate carboxylase; Reviewed; Region: PRK12999 651182000934 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 651182000935 ATP-grasp domain; Region: ATP-grasp_4; cl17255 651182000936 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 651182000937 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 651182000938 active site 651182000939 catalytic residues [active] 651182000940 metal binding site [ion binding]; metal-binding site 651182000941 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 651182000942 carboxyltransferase (CT) interaction site; other site 651182000943 biotinylation site [posttranslational modification]; other site 651182000944 PGAP1-like protein; Region: PGAP1; pfam07819 651182000945 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 651182000946 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 651182000947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182000948 homodimer interface [polypeptide binding]; other site 651182000949 catalytic residue [active] 651182000950 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 651182000951 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 651182000952 dimer interface [polypeptide binding]; other site 651182000953 putative functional site; other site 651182000954 putative MPT binding site; other site 651182000955 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 651182000956 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 651182000957 dimer interface [polypeptide binding]; other site 651182000958 putative functional site; other site 651182000959 putative MPT binding site; other site 651182000960 PBP superfamily domain; Region: PBP_like; pfam12727 651182000961 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; cd00198 651182000962 metal ion-dependent adhesion site (MIDAS); other site 651182000963 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 651182000964 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 651182000965 ligand binding site [chemical binding]; other site 651182000966 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 651182000967 GAF domain; Region: GAF; pfam01590 651182000968 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 651182000969 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182000970 dimer interface [polypeptide binding]; other site 651182000971 phosphorylation site [posttranslational modification] 651182000972 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 651182000973 ATP binding site [chemical binding]; other site 651182000974 Mg2+ binding site [ion binding]; other site 651182000975 G-X-G motif; other site 651182000976 Response regulator receiver domain; Region: Response_reg; pfam00072 651182000977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182000978 active site 651182000979 phosphorylation site [posttranslational modification] 651182000980 intermolecular recognition site; other site 651182000981 dimerization interface [polypeptide binding]; other site 651182000982 Bacitracin resistance protein BacA; Region: BacA; pfam02673 651182000983 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 651182000984 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 651182000985 active site 651182000986 substrate binding site [chemical binding]; other site 651182000987 metal binding site [ion binding]; metal-binding site 651182000988 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 651182000989 Part of AAA domain; Region: AAA_19; pfam13245 651182000990 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182000991 Family description; Region: UvrD_C_2; pfam13538 651182000992 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 651182000993 Major Facilitator Superfamily; Region: MFS_1; pfam07690 651182000994 putative substrate translocation pore; other site 651182000995 Ion channel; Region: Ion_trans_2; pfam07885 651182000996 TrkA-N domain; Region: TrkA_N; pfam02254 651182000997 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 651182000998 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 651182000999 spermidine synthase; Provisional; Region: PRK03612 651182001000 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 651182001001 Predicted membrane protein [Function unknown]; Region: COG3766 651182001002 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 651182001003 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 651182001004 Radical SAM superfamily; Region: Radical_SAM; pfam04055 651182001005 FeS/SAM binding site; other site 651182001006 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 651182001007 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 651182001008 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 651182001009 catalytic residue [active] 651182001010 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 651182001011 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 651182001012 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 651182001013 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 651182001014 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 651182001015 Walker A motif; other site 651182001016 ATP binding site [chemical binding]; other site 651182001017 Walker B motif; other site 651182001018 arginine finger; other site 651182001019 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182001020 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 651182001021 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 651182001022 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 651182001023 G1 box; other site 651182001024 putative GEF interaction site [polypeptide binding]; other site 651182001025 GTP/Mg2+ binding site [chemical binding]; other site 651182001026 Switch I region; other site 651182001027 G2 box; other site 651182001028 G3 box; other site 651182001029 Switch II region; other site 651182001030 G4 box; other site 651182001031 G5 box; other site 651182001032 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 651182001033 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 651182001034 Proline dehydrogenase; Region: Pro_dh; cl03282 651182001035 GAF domain; Region: GAF_2; pfam13185 651182001036 GAF domain; Region: GAF; pfam01590 651182001037 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182001038 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 651182001039 putative active site [active] 651182001040 heme pocket [chemical binding]; other site 651182001041 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182001042 putative active site [active] 651182001043 heme pocket [chemical binding]; other site 651182001044 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 651182001045 dimer interface [polypeptide binding]; other site 651182001046 phosphorylation site [posttranslational modification] 651182001047 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 651182001048 ATP binding site [chemical binding]; other site 651182001049 Mg2+ binding site [ion binding]; other site 651182001050 G-X-G motif; other site 651182001051 Response regulator receiver domain; Region: Response_reg; pfam00072 651182001052 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182001053 active site 651182001054 phosphorylation site [posttranslational modification] 651182001055 intermolecular recognition site; other site 651182001056 dimerization interface [polypeptide binding]; other site 651182001057 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 651182001058 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182001059 active site 651182001060 phosphorylation site [posttranslational modification] 651182001061 intermolecular recognition site; other site 651182001062 dimerization interface [polypeptide binding]; other site 651182001063 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182001064 Zn2+ binding site [ion binding]; other site 651182001065 Mg2+ binding site [ion binding]; other site 651182001066 Response regulator receiver domain; Region: Response_reg; pfam00072 651182001067 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182001068 active site 651182001069 phosphorylation site [posttranslational modification] 651182001070 intermolecular recognition site; other site 651182001071 dimerization interface [polypeptide binding]; other site 651182001072 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 651182001073 dimer interface [polypeptide binding]; other site 651182001074 phosphorylation site [posttranslational modification] 651182001075 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 651182001076 ATP binding site [chemical binding]; other site 651182001077 Mg2+ binding site [ion binding]; other site 651182001078 G-X-G motif; other site 651182001079 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182001080 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182001081 active site 651182001082 phosphorylation site [posttranslational modification] 651182001083 intermolecular recognition site; other site 651182001084 dimerization interface [polypeptide binding]; other site 651182001085 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 651182001086 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 651182001087 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 651182001088 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 651182001089 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 651182001090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182001091 catalytic residue [active] 651182001092 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 651182001093 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 651182001094 CPxP motif; other site 651182001095 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 651182001096 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 651182001097 ATP binding site [chemical binding]; other site 651182001098 substrate binding site [chemical binding]; other site 651182001099 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 651182001100 DNA repair protein RadA; Provisional; Region: PRK11823 651182001101 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 651182001102 Walker A motif/ATP binding site; other site 651182001103 ATP binding site [chemical binding]; other site 651182001104 Walker B motif; other site 651182001105 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 651182001106 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 651182001107 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 651182001108 S-adenosylmethionine binding site [chemical binding]; other site 651182001109 hypothetical protein; Validated; Region: PRK00110 651182001110 Quinolinate synthetase A protein; Region: NadA; pfam02445 651182001111 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 651182001112 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 651182001113 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 651182001114 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182001115 acyl-activating enzyme (AAE) consensus motif; other site 651182001116 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182001117 AMP binding site [chemical binding]; other site 651182001118 active site 651182001119 acyl-activating enzyme (AAE) consensus motif; other site 651182001120 CoA binding site [chemical binding]; other site 651182001121 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 651182001122 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 651182001123 nucleotide binding site [chemical binding]; other site 651182001124 NEF interaction site [polypeptide binding]; other site 651182001125 SBD interface [polypeptide binding]; other site 651182001126 GrpE; Region: GrpE; pfam01025 651182001127 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 651182001128 dimer interface [polypeptide binding]; other site 651182001129 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 651182001130 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 651182001131 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 651182001132 Walker A motif; other site 651182001133 ATP binding site [chemical binding]; other site 651182001134 Walker B motif; other site 651182001135 arginine finger; other site 651182001136 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 651182001137 Integrase core domain; Region: rve; pfam00665 651182001138 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 651182001139 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 651182001140 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 651182001141 S-adenosylmethionine binding site [chemical binding]; other site 651182001142 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 651182001143 DNA-binding site [nucleotide binding]; DNA binding site 651182001144 RNA-binding motif; other site 651182001145 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 651182001146 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 651182001147 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 651182001148 putative dimerization interface [polypeptide binding]; other site 651182001149 ketol-acid reductoisomerase; Validated; Region: PRK05225 651182001150 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 651182001151 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 651182001152 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 651182001153 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 651182001154 Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]; Region: TruA; COG0101 651182001155 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 651182001156 active site 651182001157 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 651182001158 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 651182001159 Amidohydrolase; Region: Amidohydro_2; pfam04909 651182001160 Cupin domain; Region: Cupin_2; pfam07883 651182001161 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182001162 Cysteine-rich domain; Region: CCG; pfam02754 651182001163 Cysteine-rich domain; Region: CCG; pfam02754 651182001164 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 651182001165 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 651182001166 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 651182001167 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 651182001168 Ligand binding site [chemical binding]; other site 651182001169 Electron transfer flavoprotein domain; Region: ETF; pfam01012 651182001170 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 651182001171 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 651182001172 catalytic loop [active] 651182001173 iron binding site [ion binding]; other site 651182001174 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182001175 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 651182001176 dimer interface [polypeptide binding]; other site 651182001177 [2Fe-2S] cluster binding site [ion binding]; other site 651182001178 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 651182001179 SLBB domain; Region: SLBB; pfam10531 651182001180 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 651182001181 4Fe-4S binding domain; Region: Fer4; pfam00037 651182001182 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 651182001183 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 651182001184 putative dimer interface [polypeptide binding]; other site 651182001185 [2Fe-2S] cluster binding site [ion binding]; other site 651182001186 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 651182001187 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 651182001188 putative Zn2+ binding site [ion binding]; other site 651182001189 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182001190 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182001191 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182001192 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182001193 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182001194 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 651182001195 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182001196 Cysteine-rich domain; Region: CCG; pfam02754 651182001197 Cysteine-rich domain; Region: CCG; pfam02754 651182001198 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 651182001199 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 651182001200 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 651182001201 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182001202 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 651182001203 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 651182001204 Coenzyme A binding pocket [chemical binding]; other site 651182001205 6-oxocyclohex-1-ene-1-carbonyl-CoA hydrolase; Region: dearomat_oah; TIGR03200 651182001206 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 651182001207 substrate binding site [chemical binding]; other site 651182001208 oxyanion hole (OAH) forming residues; other site 651182001209 trimer interface [polypeptide binding]; other site 651182001210 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 651182001211 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 651182001212 NAD(P) binding site [chemical binding]; other site 651182001213 homotetramer interface [polypeptide binding]; other site 651182001214 homodimer interface [polypeptide binding]; other site 651182001215 active site 651182001216 6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase, and other MDR family members; Region: hydroxyacyl_CoA_DH; cd08254 651182001217 6-hydroxycyclohex-1-ene-1-carbonyl-CoA dehydrogenase; Region: dearomat_had; TIGR03201 651182001218 putative NAD(P) binding site [chemical binding]; other site 651182001219 catalytic Zn binding site [ion binding]; other site 651182001220 structural Zn binding site [ion binding]; other site 651182001221 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 651182001222 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 651182001223 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 651182001224 DctM-like transporters; Region: DctM; pfam06808 651182001225 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 651182001226 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182001227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182001228 active site 651182001229 phosphorylation site [posttranslational modification] 651182001230 intermolecular recognition site; other site 651182001231 dimerization interface [polypeptide binding]; other site 651182001232 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 651182001233 Walker A motif; other site 651182001234 ATP binding site [chemical binding]; other site 651182001235 Walker B motif; other site 651182001236 arginine finger; other site 651182001237 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 651182001238 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182001239 putative active site [active] 651182001240 heme pocket [chemical binding]; other site 651182001241 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 651182001242 dimer interface [polypeptide binding]; other site 651182001243 phosphorylation site [posttranslational modification] 651182001244 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 651182001245 ATP binding site [chemical binding]; other site 651182001246 Mg2+ binding site [ion binding]; other site 651182001247 G-X-G motif; other site 651182001248 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 651182001249 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 651182001250 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 651182001251 catalytic loop [active] 651182001252 iron binding site [ion binding]; other site 651182001253 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 651182001254 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 651182001255 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl17222 651182001256 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 651182001257 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 651182001258 hydrogenase 4 subunit H; Validated; Region: PRK08222 651182001259 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 651182001260 4Fe-4S binding domain; Region: Fer4; cl02805 651182001261 thiosulfate reductase PhsA; Provisional; Region: PRK15488 651182001262 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 651182001263 putative [Fe4-S4] binding site [ion binding]; other site 651182001264 putative molybdopterin cofactor binding site [chemical binding]; other site 651182001265 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 651182001266 putative molybdopterin cofactor binding site; other site 651182001267 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 651182001268 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 651182001269 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 651182001270 dimer interface [polypeptide binding]; other site 651182001271 phosphorylation site [posttranslational modification] 651182001272 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 651182001273 ATP binding site [chemical binding]; other site 651182001274 Mg2+ binding site [ion binding]; other site 651182001275 G-X-G motif; other site 651182001276 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 651182001277 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182001278 active site 651182001279 phosphorylation site [posttranslational modification] 651182001280 intermolecular recognition site; other site 651182001281 dimerization interface [polypeptide binding]; other site 651182001282 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 651182001283 DNA binding site [nucleotide binding] 651182001284 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 651182001285 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 651182001286 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 651182001287 HlyD family secretion protein; Region: HlyD_3; pfam13437 651182001288 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 651182001289 Protein export membrane protein; Region: SecD_SecF; cl14618 651182001290 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 651182001291 MEKHLA domain; Region: MEKHLA; pfam08670 651182001292 Methyltransferase TYW3; Region: TYW3; cl00689 651182001293 Predicted metal-binding protein (DUF2284); Region: DUF2284; cl02248 651182001294 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 651182001295 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 651182001296 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 651182001297 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 651182001298 cofactor binding site; other site 651182001299 DNA binding site [nucleotide binding] 651182001300 substrate interaction site [chemical binding]; other site 651182001301 Protein of unknown function DUF262; Region: DUF262; pfam03235 651182001302 Uncharacterized conserved protein [Function unknown]; Region: COG1479 651182001303 Uncharacterized conserved protein [Function unknown]; Region: COG4938 651182001304 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182001305 Walker A/P-loop; other site 651182001306 ATP binding site [chemical binding]; other site 651182001307 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182001308 Walker B; other site 651182001309 D-loop; other site 651182001310 H-loop/switch region; other site 651182001311 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 651182001312 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 651182001313 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 651182001314 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 651182001315 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 651182001316 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 651182001317 active site 651182001318 catalytic residues [active] 651182001319 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182001320 active site 651182001321 phosphorylation site [posttranslational modification] 651182001322 intermolecular recognition site; other site 651182001323 dimerization interface [polypeptide binding]; other site 651182001324 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182001325 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182001326 putative active site [active] 651182001327 heme pocket [chemical binding]; other site 651182001328 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 651182001329 dimer interface [polypeptide binding]; other site 651182001330 phosphorylation site [posttranslational modification] 651182001331 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 651182001332 ATP binding site [chemical binding]; other site 651182001333 Mg2+ binding site [ion binding]; other site 651182001334 G-X-G motif; other site 651182001335 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 651182001336 Transcriptional regulator [Transcription]; Region: IclR; COG1414 651182001337 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 651182001338 Bacterial transcriptional regulator; Region: IclR; pfam01614 651182001339 Transcriptional regulator [Transcription]; Region: IclR; COG1414 651182001340 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 651182001341 Bacterial transcriptional regulator; Region: IclR; pfam01614 651182001342 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 651182001343 4Fe-4S binding domain; Region: Fer4; pfam00037 651182001344 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 651182001345 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 651182001346 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182001347 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 651182001348 Ferredoxin [Energy production and conversion]; Region: COG1146 651182001349 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 651182001350 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 651182001351 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182001352 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 651182001353 Ethanolamine utilisation protein EutA; Region: EutA; pfam06277 651182001354 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 651182001355 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 651182001356 FAD binding site [chemical binding]; other site 651182001357 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 651182001358 HSP70 interaction site [polypeptide binding]; other site 651182001359 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182001360 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 651182001361 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 651182001362 active site 651182001363 metal binding site [ion binding]; metal-binding site 651182001364 trigger factor; Provisional; Region: tig; PRK01490 651182001365 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 651182001366 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 651182001367 Clp protease; Region: CLP_protease; pfam00574 651182001368 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 651182001369 oligomer interface [polypeptide binding]; other site 651182001370 active site residues [active] 651182001371 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 651182001372 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 651182001373 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 651182001374 Walker A motif; other site 651182001375 ATP binding site [chemical binding]; other site 651182001376 Walker B motif; other site 651182001377 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 651182001378 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 651182001379 Found in ATP-dependent protease La (LON); Region: LON; smart00464 651182001380 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 651182001381 Walker A motif; other site 651182001382 ATP binding site [chemical binding]; other site 651182001383 Walker B motif; other site 651182001384 arginine finger; other site 651182001385 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 651182001386 transcription termination factor Rho; Provisional; Region: PRK12608 651182001387 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 651182001388 RNA binding site [nucleotide binding]; other site 651182001389 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 651182001390 Walker A motif; other site 651182001391 ATP binding site [chemical binding]; other site 651182001392 Walker B motif; other site 651182001393 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 651182001394 tartrate dehydrogenase; Region: TTC; TIGR02089 651182001395 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 651182001396 DNA-binding site [nucleotide binding]; DNA binding site 651182001397 RNA-binding motif; other site 651182001398 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 651182001399 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 651182001400 tricarballylate utilization protein B; Provisional; Region: PRK15033 651182001401 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 651182001402 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182001403 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 651182001404 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182001405 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182001406 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 651182001407 Ferredoxin [Energy production and conversion]; Region: COG1146 651182001408 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 651182001409 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 651182001410 Flagellin N-methylase; Region: FliB; pfam03692 651182001411 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 651182001412 classical (c) SDRs; Region: SDR_c; cd05233 651182001413 NAD(P) binding site [chemical binding]; other site 651182001414 active site 651182001415 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 651182001416 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182001417 Zn2+ binding site [ion binding]; other site 651182001418 Mg2+ binding site [ion binding]; other site 651182001419 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 651182001420 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 651182001421 nucleoside/Zn binding site; other site 651182001422 dimer interface [polypeptide binding]; other site 651182001423 catalytic motif [active] 651182001424 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 651182001425 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 651182001426 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 651182001427 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 651182001428 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 651182001429 23S rRNA binding site [nucleotide binding]; other site 651182001430 L21 binding site [polypeptide binding]; other site 651182001431 L13 binding site [polypeptide binding]; other site 651182001432 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 651182001433 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 651182001434 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 651182001435 dimer interface [polypeptide binding]; other site 651182001436 motif 1; other site 651182001437 active site 651182001438 motif 2; other site 651182001439 motif 3; other site 651182001440 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 651182001441 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 651182001442 putative tRNA-binding site [nucleotide binding]; other site 651182001443 B3/4 domain; Region: B3_4; pfam03483 651182001444 tRNA synthetase B5 domain; Region: B5; pfam03484 651182001445 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 651182001446 dimer interface [polypeptide binding]; other site 651182001447 motif 1; other site 651182001448 motif 3; other site 651182001449 motif 2; other site 651182001450 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 651182001451 ribosome maturation protein RimP; Reviewed; Region: PRK00092 651182001452 Sm and related proteins; Region: Sm_like; cl00259 651182001453 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 651182001454 putative oligomer interface [polypeptide binding]; other site 651182001455 putative RNA binding site [nucleotide binding]; other site 651182001456 NusA N-terminal domain; Region: NusA_N; pfam08529 651182001457 transcription termination factor NusA; Region: NusA; TIGR01953 651182001458 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 651182001459 RNA binding site [nucleotide binding]; other site 651182001460 homodimer interface [polypeptide binding]; other site 651182001461 NusA-like KH domain; Region: KH_5; pfam13184 651182001462 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 651182001463 G-X-X-G motif; other site 651182001464 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 651182001465 translation initiation factor IF-2; Region: IF-2; TIGR00487 651182001466 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 651182001467 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 651182001468 G1 box; other site 651182001469 putative GEF interaction site [polypeptide binding]; other site 651182001470 GTP/Mg2+ binding site [chemical binding]; other site 651182001471 Switch I region; other site 651182001472 G2 box; other site 651182001473 G3 box; other site 651182001474 Switch II region; other site 651182001475 G4 box; other site 651182001476 G5 box; other site 651182001477 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 651182001478 Translation-initiation factor 2; Region: IF-2; pfam11987 651182001479 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 651182001480 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 651182001481 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 651182001482 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 651182001483 RNA binding site [nucleotide binding]; other site 651182001484 active site 651182001485 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 651182001486 16S/18S rRNA binding site [nucleotide binding]; other site 651182001487 S13e-L30e interaction site [polypeptide binding]; other site 651182001488 25S rRNA binding site [nucleotide binding]; other site 651182001489 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 651182001490 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 651182001491 RNase E interface [polypeptide binding]; other site 651182001492 trimer interface [polypeptide binding]; other site 651182001493 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 651182001494 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 651182001495 RNase E interface [polypeptide binding]; other site 651182001496 trimer interface [polypeptide binding]; other site 651182001497 active site 651182001498 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 651182001499 putative nucleic acid binding region [nucleotide binding]; other site 651182001500 G-X-X-G motif; other site 651182001501 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 651182001502 RNA binding site [nucleotide binding]; other site 651182001503 domain interface; other site 651182001504 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 651182001505 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 651182001506 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 651182001507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182001508 Walker A/P-loop; other site 651182001509 ATP binding site [chemical binding]; other site 651182001510 Q-loop/lid; other site 651182001511 ABC transporter signature motif; other site 651182001512 Walker B; other site 651182001513 D-loop; other site 651182001514 H-loop/switch region; other site 651182001515 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 651182001516 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 651182001517 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182001518 Walker A/P-loop; other site 651182001519 ATP binding site [chemical binding]; other site 651182001520 Q-loop/lid; other site 651182001521 ABC transporter signature motif; other site 651182001522 Walker B; other site 651182001523 D-loop; other site 651182001524 H-loop/switch region; other site 651182001525 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 651182001526 GAF domain; Region: GAF_2; pfam13185 651182001527 GAF domain; Region: GAF; cl17456 651182001528 PAS domain S-box; Region: sensory_box; TIGR00229 651182001529 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182001530 putative active site [active] 651182001531 heme pocket [chemical binding]; other site 651182001532 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 651182001533 dimer interface [polypeptide binding]; other site 651182001534 phosphorylation site [posttranslational modification] 651182001535 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 651182001536 ATP binding site [chemical binding]; other site 651182001537 Mg2+ binding site [ion binding]; other site 651182001538 G-X-G motif; other site 651182001539 Response regulator receiver domain; Region: Response_reg; pfam00072 651182001540 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182001541 active site 651182001542 phosphorylation site [posttranslational modification] 651182001543 intermolecular recognition site; other site 651182001544 dimerization interface [polypeptide binding]; other site 651182001545 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182001546 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182001547 active site 651182001548 phosphorylation site [posttranslational modification] 651182001549 intermolecular recognition site; other site 651182001550 dimerization interface [polypeptide binding]; other site 651182001551 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 651182001552 Walker A motif; other site 651182001553 ATP binding site [chemical binding]; other site 651182001554 Walker B motif; other site 651182001555 arginine finger; other site 651182001556 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 651182001557 Cache domain; Region: Cache_1; pfam02743 651182001558 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182001559 dimer interface [polypeptide binding]; other site 651182001560 putative CheW interface [polypeptide binding]; other site 651182001561 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 651182001562 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 651182001563 dimer interface [polypeptide binding]; other site 651182001564 substrate binding site [chemical binding]; other site 651182001565 metal binding site [ion binding]; metal-binding site 651182001566 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 651182001567 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 651182001568 active site 651182001569 substrate binding site [chemical binding]; other site 651182001570 coenzyme B12 binding site [chemical binding]; other site 651182001571 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 651182001572 B12 binding site [chemical binding]; other site 651182001573 cobalt ligand [ion binding]; other site 651182001574 membrane ATPase/protein kinase; Provisional; Region: PRK09435 651182001575 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 651182001576 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 651182001577 Walker A; other site 651182001578 G1 box; other site 651182001579 GTP/Mg2+ binding site [chemical binding]; other site 651182001580 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 651182001581 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 651182001582 ligand binding site [chemical binding]; other site 651182001583 flexible hinge region; other site 651182001584 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 651182001585 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 651182001586 ATP binding site [chemical binding]; other site 651182001587 substrate interface [chemical binding]; other site 651182001588 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_like; cl00203 651182001589 Ubiquitin-like proteins; Region: UBQ; cl00155 651182001590 charged pocket; other site 651182001591 hydrophobic patch; other site 651182001592 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; cd00198 651182001593 metal ion-dependent adhesion site (MIDAS); other site 651182001594 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 651182001595 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 651182001596 Walker A motif; other site 651182001597 ATP binding site [chemical binding]; other site 651182001598 Walker B motif; other site 651182001599 arginine finger; other site 651182001600 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 651182001601 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 651182001602 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 651182001603 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 651182001604 FeS/SAM binding site; other site 651182001605 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 651182001606 4Fe-4S binding domain; Region: Fer4; pfam00037 651182001607 4Fe-4S binding domain; Region: Fer4_6; pfam12837 651182001608 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 651182001609 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 651182001610 BssC/TutF protein; Region: BssC_TutF; pfam08201 651182001611 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 651182001612 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182001613 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 651182001614 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 651182001615 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182001616 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 651182001617 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 651182001618 DUF35 OB-fold domain; Region: DUF35; pfam01796 651182001619 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 651182001620 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 651182001621 active site 651182001622 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 651182001623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182001624 NAD(P) binding site [chemical binding]; other site 651182001625 active site 651182001626 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 651182001627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182001628 NAD(P) binding site [chemical binding]; other site 651182001629 active site 651182001630 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 651182001631 CoA-transferase family III; Region: CoA_transf_3; pfam02515 651182001632 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 651182001633 CoA-transferase family III; Region: CoA_transf_3; pfam02515 651182001634 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 651182001635 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 651182001636 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 651182001637 active site 651182001638 enoyl-CoA hydratase; Provisional; Region: PRK06494 651182001639 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 651182001640 substrate binding site [chemical binding]; other site 651182001641 oxyanion hole (OAH) forming residues; other site 651182001642 trimer interface [polypeptide binding]; other site 651182001643 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 651182001644 Ligand binding site [chemical binding]; other site 651182001645 Electron transfer flavoprotein domain; Region: ETF; pfam01012 651182001646 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 651182001647 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 651182001648 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 651182001649 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182001650 Cysteine-rich domain; Region: CCG; pfam02754 651182001651 Cysteine-rich domain; Region: CCG; pfam02754 651182001652 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 651182001653 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 651182001654 conserved cys residue [active] 651182001655 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 651182001656 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 651182001657 toxin interface [polypeptide binding]; other site 651182001658 Zn binding site [ion binding]; other site 651182001659 Domain of unknown function (DUF4037); Region: DUF4037; pfam13228 651182001660 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 651182001661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182001662 NAD(P) binding site [chemical binding]; other site 651182001663 active site 651182001664 Protein of unknown function (DUF4125); Region: DUF4125; pfam13526 651182001665 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 651182001666 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182001667 acyl-activating enzyme (AAE) consensus motif; other site 651182001668 AMP binding site [chemical binding]; other site 651182001669 active site 651182001670 CoA binding site [chemical binding]; other site 651182001671 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 651182001672 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 651182001673 CoA-ligase; Region: Ligase_CoA; pfam00549 651182001674 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 651182001675 CoA binding domain; Region: CoA_binding; smart00881 651182001676 CoA-ligase; Region: Ligase_CoA; pfam00549 651182001677 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 651182001678 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 651182001679 Iron-sulfur protein interface; other site 651182001680 proximal heme binding site [chemical binding]; other site 651182001681 distal heme binding site [chemical binding]; other site 651182001682 dimer interface [polypeptide binding]; other site 651182001683 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 651182001684 L-aspartate oxidase; Provisional; Region: PRK06175 651182001685 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 651182001686 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 651182001687 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 651182001688 fumarate hydratase; Provisional; Region: PRK15389 651182001689 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 651182001690 Fumarase C-terminus; Region: Fumerase_C; pfam05683 651182001691 PAS domain S-box; Region: sensory_box; TIGR00229 651182001692 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 651182001693 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182001694 putative active site [active] 651182001695 heme pocket [chemical binding]; other site 651182001696 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 651182001697 dimer interface [polypeptide binding]; other site 651182001698 phosphorylation site [posttranslational modification] 651182001699 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 651182001700 ATP binding site [chemical binding]; other site 651182001701 Mg2+ binding site [ion binding]; other site 651182001702 G-X-G motif; other site 651182001703 Response regulator receiver domain; Region: Response_reg; pfam00072 651182001704 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182001705 active site 651182001706 phosphorylation site [posttranslational modification] 651182001707 intermolecular recognition site; other site 651182001708 dimerization interface [polypeptide binding]; other site 651182001709 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 651182001710 dimerization interface [polypeptide binding]; other site 651182001711 fumarate hydratase; Reviewed; Region: fumC; PRK00485 651182001712 Class II fumarases; Region: Fumarase_classII; cd01362 651182001713 active site 651182001714 tetramer interface [polypeptide binding]; other site 651182001715 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 651182001716 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 651182001717 folate binding site [chemical binding]; other site 651182001718 NADP+ binding site [chemical binding]; other site 651182001719 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 651182001720 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182001721 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 651182001722 dimer interface [polypeptide binding]; other site 651182001723 phosphorylation site [posttranslational modification] 651182001724 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 651182001725 ATP binding site [chemical binding]; other site 651182001726 Mg2+ binding site [ion binding]; other site 651182001727 G-X-G motif; other site 651182001728 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182001729 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182001730 active site 651182001731 phosphorylation site [posttranslational modification] 651182001732 intermolecular recognition site; other site 651182001733 dimerization interface [polypeptide binding]; other site 651182001734 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 651182001735 Walker A motif; other site 651182001736 ATP binding site [chemical binding]; other site 651182001737 Walker B motif; other site 651182001738 arginine finger; other site 651182001739 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182001740 Major Facilitator Superfamily; Region: MFS_1; pfam07690 651182001741 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 651182001742 putative substrate translocation pore; other site 651182001743 acetyl-CoA synthetase; Provisional; Region: PRK00174 651182001744 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 651182001745 active site 651182001746 CoA binding site [chemical binding]; other site 651182001747 acyl-activating enzyme (AAE) consensus motif; other site 651182001748 AMP binding site [chemical binding]; other site 651182001749 acetate binding site [chemical binding]; other site 651182001750 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 651182001751 active site residue [active] 651182001752 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 651182001753 PAS domain S-box; Region: sensory_box; TIGR00229 651182001754 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182001755 putative active site [active] 651182001756 heme pocket [chemical binding]; other site 651182001757 PAS domain S-box; Region: sensory_box; TIGR00229 651182001758 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182001759 putative active site [active] 651182001760 heme pocket [chemical binding]; other site 651182001761 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182001762 PAS domain; Region: PAS_9; pfam13426 651182001763 putative active site [active] 651182001764 heme pocket [chemical binding]; other site 651182001765 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 651182001766 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182001767 Zn2+ binding site [ion binding]; other site 651182001768 Mg2+ binding site [ion binding]; other site 651182001769 Response regulator receiver domain; Region: Response_reg; pfam00072 651182001770 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182001771 active site 651182001772 phosphorylation site [posttranslational modification] 651182001773 intermolecular recognition site; other site 651182001774 dimerization interface [polypeptide binding]; other site 651182001775 Uncharacterized conserved protein [Function unknown]; Region: COG0432 651182001776 Uncharacterized conserved protein [Function unknown]; Region: COG0393 651182001777 Cache domain; Region: Cache_1; pfam02743 651182001778 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182001779 dimer interface [polypeptide binding]; other site 651182001780 putative CheW interface [polypeptide binding]; other site 651182001781 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 651182001782 active site 651182001783 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 651182001784 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 651182001785 substrate binding pocket [chemical binding]; other site 651182001786 inhibitor binding site; inhibition site 651182001787 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 651182001788 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 651182001789 HlyD family secretion protein; Region: HlyD_3; pfam13437 651182001790 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 651182001791 Protein export membrane protein; Region: SecD_SecF; cl14618 651182001792 PAS domain; Region: PAS_9; pfam13426 651182001793 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 651182001794 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 651182001795 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 651182001796 putative DNA binding site [nucleotide binding]; other site 651182001797 putative Zn2+ binding site [ion binding]; other site 651182001798 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 651182001799 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 651182001800 NAD(P) binding site [chemical binding]; other site 651182001801 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 651182001802 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 651182001803 putative dimer interface [polypeptide binding]; other site 651182001804 active site pocket [active] 651182001805 putative cataytic base [active] 651182001806 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 651182001807 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 651182001808 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 651182001809 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 651182001810 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 651182001811 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 651182001812 HSP70 interaction site [polypeptide binding]; other site 651182001813 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 651182001814 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182001815 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182001816 PBP superfamily domain; Region: PBP_like_2; pfam12849 651182001817 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 651182001818 active site 1 [active] 651182001819 glutamate dehydrogenase; Provisional; Region: PRK09414 651182001820 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 651182001821 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 651182001822 NAD(P) binding site [chemical binding]; other site 651182001823 Cupin domain; Region: Cupin_2; pfam07883 651182001824 Protein metal binding site; Region: Cu-binding_MopE; pfam11617 651182001825 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 651182001826 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 651182001827 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 651182001828 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 651182001829 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 651182001830 catalytic residues [active] 651182001831 HEAT repeats; Region: HEAT_2; pfam13646 651182001832 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 651182001833 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 651182001834 Part of AAA domain; Region: AAA_19; pfam13245 651182001835 Family description; Region: UvrD_C_2; pfam13538 651182001836 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 651182001837 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 651182001838 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 651182001839 N-acetyl-D-glucosamine binding site [chemical binding]; other site 651182001840 catalytic residue [active] 651182001841 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 651182001842 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 651182001843 active site 651182001844 tetramer interface; other site 651182001845 Flagellin N-methylase; Region: FliB; cl00497 651182001846 dihydrodipicolinate synthase; Region: dapA; TIGR00674 651182001847 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 651182001848 dimer interface [polypeptide binding]; other site 651182001849 active site 651182001850 catalytic residue [active] 651182001851 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 651182001852 binding surface 651182001853 TPR motif; other site 651182001854 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 651182001855 TPR motif; other site 651182001856 TPR repeat; Region: TPR_11; pfam13414 651182001857 binding surface 651182001858 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 651182001859 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 651182001860 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 651182001861 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 651182001862 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 651182001863 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182001864 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 651182001865 catalytic triad [active] 651182001866 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 651182001867 heme-binding residues [chemical binding]; other site 651182001868 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 651182001869 twin arginine translocase protein A; Provisional; Region: tatA; PRK14858 651182001870 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 651182001871 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 651182001872 ATP binding site [chemical binding]; other site 651182001873 Mg++ binding site [ion binding]; other site 651182001874 motif III; other site 651182001875 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 651182001876 nucleotide binding region [chemical binding]; other site 651182001877 ATP-binding site [chemical binding]; other site 651182001878 Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ThiS; COG2104 651182001879 charged pocket; other site 651182001880 hydrophobic patch; other site 651182001881 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 651182001882 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 651182001883 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182001884 YGGT family; Region: YGGT; pfam02325 651182001885 DivIVA protein; Region: DivIVA; pfam05103 651182001886 DivIVA domain; Region: DivI1A_domain; TIGR03544 651182001887 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 651182001888 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 651182001889 Walker A motif; other site 651182001890 ATP binding site [chemical binding]; other site 651182001891 Walker B motif; other site 651182001892 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 651182001893 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 651182001894 Walker A motif; other site 651182001895 ATP binding site [chemical binding]; other site 651182001896 Walker B motif; other site 651182001897 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 651182001898 Transglycosylase; Region: Transgly; pfam00912 651182001899 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 651182001900 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 651182001901 Sporulation related domain; Region: SPOR; pfam05036 651182001902 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 651182001903 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 651182001904 CPxP motif; other site 651182001905 DsrE/DsrF-like family; Region: DrsE; pfam02635 651182001906 Flagellin N-methylase; Region: FliB; pfam03692 651182001907 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 651182001908 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 651182001909 FMN binding site [chemical binding]; other site 651182001910 active site 651182001911 catalytic residues [active] 651182001912 substrate binding site [chemical binding]; other site 651182001913 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 651182001914 metal binding site 2 [ion binding]; metal-binding site 651182001915 putative DNA binding helix; other site 651182001916 metal binding site 1 [ion binding]; metal-binding site 651182001917 dimer interface [polypeptide binding]; other site 651182001918 structural Zn2+ binding site [ion binding]; other site 651182001919 FeoA domain; Region: FeoA; pfam04023 651182001920 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 651182001921 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 651182001922 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 651182001923 G1 box; other site 651182001924 GTP/Mg2+ binding site [chemical binding]; other site 651182001925 Switch I region; other site 651182001926 G2 box; other site 651182001927 G3 box; other site 651182001928 Switch II region; other site 651182001929 G4 box; other site 651182001930 G5 box; other site 651182001931 Nucleoside recognition; Region: Gate; pfam07670 651182001932 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 651182001933 Nucleoside recognition; Region: Gate; pfam07670 651182001934 Bacterial SH3 domain; Region: SH3_4; pfam06347 651182001935 Bacterial SH3 domain; Region: SH3_4; pfam06347 651182001936 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182001937 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182001938 active site 651182001939 phosphorylation site [posttranslational modification] 651182001940 intermolecular recognition site; other site 651182001941 dimerization interface [polypeptide binding]; other site 651182001942 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 651182001943 Walker A motif; other site 651182001944 ATP binding site [chemical binding]; other site 651182001945 Walker B motif; other site 651182001946 arginine finger; other site 651182001947 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182001948 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 651182001949 dimer interface [polypeptide binding]; other site 651182001950 phosphorylation site [posttranslational modification] 651182001951 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 651182001952 ATP binding site [chemical binding]; other site 651182001953 Mg2+ binding site [ion binding]; other site 651182001954 G-X-G motif; other site 651182001955 Cell division protein FtsA; Region: FtsA; cl17206 651182001956 Competence protein A; Region: Competence_A; pfam11104 651182001957 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 651182001958 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 651182001959 Pilus assembly protein, PilO; Region: PilO; pfam04350 651182001960 Pilus assembly protein, PilP; Region: PilP; pfam04351 651182001961 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 651182001962 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 651182001963 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 651182001964 TPR repeat; Region: TPR_11; pfam13414 651182001965 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 651182001966 TPR motif; other site 651182001967 binding surface 651182001968 TPR repeat; Region: TPR_11; pfam13414 651182001969 Tetratricopeptide repeat; Region: TPR_12; pfam13424 651182001970 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 651182001971 Tetratricopeptide repeat; Region: TPR_12; pfam13424 651182001972 binding surface 651182001973 TPR motif; other site 651182001974 threonine synthase; Validated; Region: PRK06260 651182001975 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 651182001976 homodimer interface [polypeptide binding]; other site 651182001977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182001978 catalytic residue [active] 651182001979 seryl-tRNA synthetase; Provisional; Region: PRK05431 651182001980 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 651182001981 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 651182001982 dimer interface [polypeptide binding]; other site 651182001983 active site 651182001984 motif 1; other site 651182001985 motif 2; other site 651182001986 motif 3; other site 651182001987 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 651182001988 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 651182001989 Ion channel; Region: Ion_trans_2; pfam07885 651182001990 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 651182001991 TrkA-N domain; Region: TrkA_N; pfam02254 651182001992 TrkA-C domain; Region: TrkA_C; pfam02080 651182001993 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 651182001994 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 651182001995 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 651182001996 S-adenosylmethionine binding site [chemical binding]; other site 651182001997 Domain of unknown function (DUF368); Region: DUF368; pfam04018 651182001998 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 651182001999 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 651182002000 motif 1; other site 651182002001 dimer interface [polypeptide binding]; other site 651182002002 active site 651182002003 motif 2; other site 651182002004 motif 3; other site 651182002005 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 651182002006 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 651182002007 active site 651182002008 Zn binding site [ion binding]; other site 651182002009 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 651182002010 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 651182002011 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 651182002012 enoyl-CoA hydratase; Provisional; Region: PRK06688 651182002013 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 651182002014 substrate binding site [chemical binding]; other site 651182002015 oxyanion hole (OAH) forming residues; other site 651182002016 trimer interface [polypeptide binding]; other site 651182002017 Transcriptional regulator [Transcription]; Region: LysR; COG0583 651182002018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 651182002019 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 651182002020 putative dimerization interface [polypeptide binding]; other site 651182002021 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 651182002022 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 651182002023 active site 651182002024 (T/H)XGH motif; other site 651182002025 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 651182002026 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 651182002027 S-adenosylmethionine binding site [chemical binding]; other site 651182002028 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182002029 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182002030 active site 651182002031 phosphorylation site [posttranslational modification] 651182002032 intermolecular recognition site; other site 651182002033 dimerization interface [polypeptide binding]; other site 651182002034 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 651182002035 Walker A motif; other site 651182002036 ATP binding site [chemical binding]; other site 651182002037 Walker B motif; other site 651182002038 arginine finger; other site 651182002039 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 651182002040 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 651182002041 dimerization interface [polypeptide binding]; other site 651182002042 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182002043 putative active site [active] 651182002044 heme pocket [chemical binding]; other site 651182002045 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 651182002046 dimer interface [polypeptide binding]; other site 651182002047 phosphorylation site [posttranslational modification] 651182002048 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 651182002049 ATP binding site [chemical binding]; other site 651182002050 Mg2+ binding site [ion binding]; other site 651182002051 G-X-G motif; other site 651182002052 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 651182002053 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 651182002054 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 651182002055 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 651182002056 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 651182002057 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 651182002058 Walker A motif; other site 651182002059 ATP binding site [chemical binding]; other site 651182002060 Walker B motif; other site 651182002061 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 651182002062 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 651182002063 active site 2 [active] 651182002064 active site 1 [active] 651182002065 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 651182002066 Helix-turn-helix domain; Region: HTH_28; pfam13518 651182002067 Winged helix-turn helix; Region: HTH_29; pfam13551 651182002068 Homeodomain-like domain; Region: HTH_32; pfam13565 651182002069 DDE superfamily endonuclease; Region: DDE_3; pfam13358 651182002070 Homeodomain-like domain; Region: HTH_23; pfam13384 651182002071 Winged helix-turn helix; Region: HTH_29; pfam13551 651182002072 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 651182002073 Transposase [DNA replication, recombination, and repair]; Region: COG5421 651182002074 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182002075 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182002076 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182002077 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182002078 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182002079 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182002080 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182002081 Cysteine-rich CPCC; Region: Cys_rich_CPCC; pfam14206 651182002082 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 651182002083 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 651182002084 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 651182002085 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 651182002086 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 651182002087 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 651182002088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 651182002089 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 651182002090 DNA binding residues [nucleotide binding] 651182002091 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 651182002092 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 651182002093 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 651182002094 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 651182002095 active site 2 [active] 651182002096 active site 1 [active] 651182002097 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 651182002098 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 651182002099 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 651182002100 active site 651182002101 NTP binding site [chemical binding]; other site 651182002102 metal binding triad [ion binding]; metal-binding site 651182002103 antibiotic binding site [chemical binding]; other site 651182002104 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 651182002105 active site 2 [active] 651182002106 active site 1 [active] 651182002107 Ubiquitin-like proteins; Region: UBQ; cl00155 651182002108 charged pocket; other site 651182002109 hydrophobic patch; other site 651182002110 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 651182002111 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 651182002112 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182002113 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 651182002114 active site 651182002115 catalytic residues [active] 651182002116 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 651182002117 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 651182002118 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182002119 Walker A/P-loop; other site 651182002120 ATP binding site [chemical binding]; other site 651182002121 Q-loop/lid; other site 651182002122 ABC transporter signature motif; other site 651182002123 Walker B; other site 651182002124 D-loop; other site 651182002125 H-loop/switch region; other site 651182002126 Peptidase family U32; Region: Peptidase_U32; pfam01136 651182002127 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 651182002128 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 651182002129 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 651182002130 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 651182002131 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 651182002132 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 651182002133 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 651182002134 FeS/SAM binding site; other site 651182002135 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 651182002136 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 651182002137 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 651182002138 Bacterial Ig-like domain (DUF1927); Region: DUF1927; pfam09099 651182002139 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 651182002140 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 651182002141 putative nucleic acid binding site [nucleotide binding]; other site 651182002142 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 651182002143 putative transposase OrfB; Reviewed; Region: PHA02517 651182002144 HTH-like domain; Region: HTH_21; pfam13276 651182002145 Integrase core domain; Region: rve; pfam00665 651182002146 Integrase core domain; Region: rve_3; pfam13683 651182002147 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182002148 Transposase; Region: HTH_Tnp_1; cl17663 651182002149 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182002150 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182002151 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182002152 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182002153 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182002154 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182002155 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182002156 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 651182002157 SIR2-like domain; Region: SIR2_2; pfam13289 651182002158 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 651182002159 5' RNA guide strand anchoring site; other site 651182002160 active site 651182002161 Virulence protein [General function prediction only]; Region: COG3943 651182002162 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 651182002163 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 651182002164 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 651182002165 substrate binding pocket [chemical binding]; other site 651182002166 membrane-bound complex binding site; other site 651182002167 hinge residues; other site 651182002168 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 651182002169 DctM-like transporters; Region: DctM; pfam06808 651182002170 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 651182002171 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 651182002172 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 651182002173 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 651182002174 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 651182002175 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 651182002176 NADP binding site [chemical binding]; other site 651182002177 dimer interface [polypeptide binding]; other site 651182002178 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 651182002179 active site 2 [active] 651182002180 active site 1 [active] 651182002181 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182002182 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182002183 active site 651182002184 phosphorylation site [posttranslational modification] 651182002185 intermolecular recognition site; other site 651182002186 dimerization interface [polypeptide binding]; other site 651182002187 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 651182002188 Walker A motif; other site 651182002189 ATP binding site [chemical binding]; other site 651182002190 Walker B motif; other site 651182002191 arginine finger; other site 651182002192 Cache domain; Region: Cache_1; pfam02743 651182002193 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 651182002194 dimerization interface [polypeptide binding]; other site 651182002195 PAS domain S-box; Region: sensory_box; TIGR00229 651182002196 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182002197 putative active site [active] 651182002198 heme pocket [chemical binding]; other site 651182002199 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182002200 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 651182002201 dimer interface [polypeptide binding]; other site 651182002202 phosphorylation site [posttranslational modification] 651182002203 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 651182002204 ATP binding site [chemical binding]; other site 651182002205 Mg2+ binding site [ion binding]; other site 651182002206 G-X-G motif; other site 651182002207 Response regulator receiver domain; Region: Response_reg; pfam00072 651182002208 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182002209 active site 651182002210 phosphorylation site [posttranslational modification] 651182002211 intermolecular recognition site; other site 651182002212 dimerization interface [polypeptide binding]; other site 651182002213 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 651182002214 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 651182002215 S-adenosylmethionine binding site [chemical binding]; other site 651182002216 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 651182002217 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 651182002218 ApbE family; Region: ApbE; pfam02424 651182002219 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 651182002220 RNA binding surface [nucleotide binding]; other site 651182002221 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 651182002222 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 651182002223 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 651182002224 non-specific DNA binding site [nucleotide binding]; other site 651182002225 salt bridge; other site 651182002226 sequence-specific DNA binding site [nucleotide binding]; other site 651182002227 Cupin domain; Region: Cupin_2; pfam07883 651182002228 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 651182002229 active site 651182002230 catalytic residues [active] 651182002231 metal binding site [ion binding]; metal-binding site 651182002232 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 651182002233 enoyl-CoA hydratase; Provisional; Region: PRK07657 651182002234 substrate binding site [chemical binding]; other site 651182002235 oxyanion hole (OAH) forming residues; other site 651182002236 trimer interface [polypeptide binding]; other site 651182002237 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 651182002238 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 651182002239 active site 651182002240 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 651182002241 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 651182002242 acyl-activating enzyme (AAE) consensus motif; other site 651182002243 putative AMP binding site [chemical binding]; other site 651182002244 putative active site [active] 651182002245 putative CoA binding site [chemical binding]; other site 651182002246 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 651182002247 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182002248 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 651182002249 B12 binding site [chemical binding]; other site 651182002250 cobalt ligand [ion binding]; other site 651182002251 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182002252 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 651182002253 putative acyltransferase; Provisional; Region: PRK05790 651182002254 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 651182002255 dimer interface [polypeptide binding]; other site 651182002256 active site 651182002257 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 651182002258 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 651182002259 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 651182002260 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 651182002261 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 651182002262 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 651182002263 active site 651182002264 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 651182002265 TPR repeat; Region: TPR_11; pfam13414 651182002266 binding surface 651182002267 TPR motif; other site 651182002268 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 651182002269 binding surface 651182002270 TPR motif; other site 651182002271 TPR repeat; Region: TPR_11; pfam13414 651182002272 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 651182002273 binding surface 651182002274 TPR motif; other site 651182002275 Tetratricopeptide repeat; Region: TPR_16; pfam13432 651182002276 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 651182002277 TPR motif; other site 651182002278 binding surface 651182002279 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 651182002280 binding surface 651182002281 TPR motif; other site 651182002282 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 651182002283 binding surface 651182002284 TPR motif; other site 651182002285 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 651182002286 TPR repeat; Region: TPR_11; pfam13414 651182002287 binding surface 651182002288 TPR motif; other site 651182002289 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 651182002290 TPR motif; other site 651182002291 binding surface 651182002292 TPR repeat; Region: TPR_11; pfam13414 651182002293 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 651182002294 Ligand Binding Site [chemical binding]; other site 651182002295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182002296 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182002297 active site 651182002298 phosphorylation site [posttranslational modification] 651182002299 intermolecular recognition site; other site 651182002300 dimerization interface [polypeptide binding]; other site 651182002301 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 651182002302 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 651182002303 Walker A/P-loop; other site 651182002304 ATP binding site [chemical binding]; other site 651182002305 Q-loop/lid; other site 651182002306 ABC transporter signature motif; other site 651182002307 Walker B; other site 651182002308 D-loop; other site 651182002309 H-loop/switch region; other site 651182002310 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 651182002311 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 651182002312 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 651182002313 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 651182002314 TM-ABC transporter signature motif; other site 651182002315 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 651182002316 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 651182002317 TM-ABC transporter signature motif; other site 651182002318 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 651182002319 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182002320 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 651182002321 acyl-activating enzyme (AAE) consensus motif; other site 651182002322 putative AMP binding site [chemical binding]; other site 651182002323 putative active site [active] 651182002324 putative CoA binding site [chemical binding]; other site 651182002325 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 651182002326 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 651182002327 Walker A/P-loop; other site 651182002328 ATP binding site [chemical binding]; other site 651182002329 Q-loop/lid; other site 651182002330 ABC transporter signature motif; other site 651182002331 Walker B; other site 651182002332 D-loop; other site 651182002333 H-loop/switch region; other site 651182002334 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 651182002335 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182002336 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 651182002337 acyl-activating enzyme (AAE) consensus motif; other site 651182002338 acyl-activating enzyme (AAE) consensus motif; other site 651182002339 putative AMP binding site [chemical binding]; other site 651182002340 putative active site [active] 651182002341 putative CoA binding site [chemical binding]; other site 651182002342 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182002343 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 651182002344 putative active site [active] 651182002345 heme pocket [chemical binding]; other site 651182002346 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182002347 putative active site [active] 651182002348 heme pocket [chemical binding]; other site 651182002349 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 651182002350 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 651182002351 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182002352 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 651182002353 dimer interface [polypeptide binding]; other site 651182002354 phosphorylation site [posttranslational modification] 651182002355 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 651182002356 ATP binding site [chemical binding]; other site 651182002357 Mg2+ binding site [ion binding]; other site 651182002358 G-X-G motif; other site 651182002359 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182002360 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 651182002361 phosphorylation site [posttranslational modification] 651182002362 dimer interface [polypeptide binding]; other site 651182002363 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 651182002364 ATP binding site [chemical binding]; other site 651182002365 Mg2+ binding site [ion binding]; other site 651182002366 G-X-G motif; other site 651182002367 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182002368 active site 651182002369 phosphorylation site [posttranslational modification] 651182002370 intermolecular recognition site; other site 651182002371 dimerization interface [polypeptide binding]; other site 651182002372 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 651182002373 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 651182002374 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 651182002375 catalytic residue [active] 651182002376 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 651182002377 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 651182002378 NAD(P) binding site [chemical binding]; other site 651182002379 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182002380 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 651182002381 FeS/SAM binding site; other site 651182002382 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 651182002383 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 651182002384 homodimer interface [polypeptide binding]; other site 651182002385 substrate-cofactor binding pocket; other site 651182002386 catalytic residue [active] 651182002387 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 651182002388 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 651182002389 salt bridge; other site 651182002390 non-specific DNA binding site [nucleotide binding]; other site 651182002391 sequence-specific DNA binding site [nucleotide binding]; other site 651182002392 Cupin domain; Region: Cupin_2; pfam07883 651182002393 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 651182002394 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 651182002395 FAD binding site [chemical binding]; other site 651182002396 homotetramer interface [polypeptide binding]; other site 651182002397 substrate binding pocket [chemical binding]; other site 651182002398 catalytic base [active] 651182002399 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 651182002400 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 651182002401 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 651182002402 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 651182002403 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 651182002404 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 651182002405 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 651182002406 Walker A motif; other site 651182002407 ATP binding site [chemical binding]; other site 651182002408 Walker B motif; other site 651182002409 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 651182002410 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 651182002411 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 651182002412 PilZ domain; Region: PilZ; pfam07238 651182002413 Type II transport protein GspH; Region: GspH; pfam12019 651182002414 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 651182002415 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 651182002416 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 651182002417 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 651182002418 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 651182002419 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 651182002420 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 651182002421 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 651182002422 TPP-binding site [chemical binding]; other site 651182002423 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 651182002424 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 651182002425 dimer interface [polypeptide binding]; other site 651182002426 PYR/PP interface [polypeptide binding]; other site 651182002427 TPP binding site [chemical binding]; other site 651182002428 substrate binding site [chemical binding]; other site 651182002429 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 651182002430 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 651182002431 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182002432 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182002433 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 651182002434 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cd03174 651182002435 active site 651182002436 catalytic residues [active] 651182002437 metal binding site [ion binding]; metal-binding site 651182002438 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 651182002439 Radical SAM superfamily; Region: Radical_SAM; pfam04055 651182002440 FeS/SAM binding site; other site 651182002441 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 651182002442 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 651182002443 Walker A/P-loop; other site 651182002444 ATP binding site [chemical binding]; other site 651182002445 Q-loop/lid; other site 651182002446 ABC transporter signature motif; other site 651182002447 Walker B; other site 651182002448 D-loop; other site 651182002449 H-loop/switch region; other site 651182002450 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 651182002451 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 651182002452 FtsX-like permease family; Region: FtsX; pfam02687 651182002453 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 651182002454 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 651182002455 FtsX-like permease family; Region: FtsX; pfam02687 651182002456 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 651182002457 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 651182002458 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 651182002459 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 651182002460 HupF/HypC family; Region: HupF_HypC; pfam01455 651182002461 Acylphosphatase; Region: Acylphosphatase; pfam00708 651182002462 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 651182002463 HypF finger; Region: zf-HYPF; pfam07503 651182002464 HypF finger; Region: zf-HYPF; pfam07503 651182002465 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 651182002466 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 651182002467 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 651182002468 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 651182002469 dimerization interface [polypeptide binding]; other site 651182002470 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 651182002471 ATP binding site [chemical binding]; other site 651182002472 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 651182002473 active site 651182002474 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 651182002475 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 651182002476 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 651182002477 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 651182002478 S-adenosylmethionine binding site [chemical binding]; other site 651182002479 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 651182002480 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 651182002481 Uncharacterized conserved protein [Function unknown]; Region: COG2006 651182002482 Domain of unknown function (DUF362); Region: DUF362; pfam04015 651182002483 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 651182002484 4Fe-4S binding domain; Region: Fer4_5; pfam12801 651182002485 4Fe-4S binding domain; Region: Fer4_5; pfam12801 651182002486 ferredoxin-type protein NapF; Region: napF; TIGR00402 651182002487 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 651182002488 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 651182002489 putative active site [active] 651182002490 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 651182002491 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 651182002492 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182002493 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 651182002494 active site 651182002495 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 651182002496 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 651182002497 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 651182002498 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 651182002499 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 651182002500 Cupin domain; Region: Cupin_2; pfam07883 651182002501 ParB-like nuclease domain; Region: ParB; smart00470 651182002502 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 651182002503 Predicted methyltransferase [General function prediction only]; Region: COG3897 651182002504 Putative methyltransferase; Region: Methyltransf_16; pfam10294 651182002505 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 651182002506 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 651182002507 Coenzyme A binding pocket [chemical binding]; other site 651182002508 GTPase RsgA; Reviewed; Region: PRK01889 651182002509 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 651182002510 GTPase/Zn-binding domain interface [polypeptide binding]; other site 651182002511 GTP/Mg2+ binding site [chemical binding]; other site 651182002512 G4 box; other site 651182002513 G5 box; other site 651182002514 G1 box; other site 651182002515 Switch I region; other site 651182002516 G2 box; other site 651182002517 G3 box; other site 651182002518 Switch II region; other site 651182002519 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 651182002520 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 651182002521 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 651182002522 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 651182002523 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 651182002524 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 651182002525 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 651182002526 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 651182002527 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 651182002528 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 651182002529 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182002530 dimer interface [polypeptide binding]; other site 651182002531 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 651182002532 putative CheW interface [polypeptide binding]; other site 651182002533 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 651182002534 intersubunit interface [polypeptide binding]; other site 651182002535 active site 651182002536 Zn2+ binding site [ion binding]; other site 651182002537 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 651182002538 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 651182002539 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182002540 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 651182002541 Low molecular weight phosphatase family; Region: LMWPc; cd00115 651182002542 active site 651182002543 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 651182002544 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 651182002545 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182002546 homodimer interface [polypeptide binding]; other site 651182002547 catalytic residue [active] 651182002548 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182002549 Zn2+ binding site [ion binding]; other site 651182002550 Mg2+ binding site [ion binding]; other site 651182002551 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 651182002552 GTP-binding protein YchF; Reviewed; Region: PRK09601 651182002553 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 651182002554 G1 box; other site 651182002555 GTP/Mg2+ binding site [chemical binding]; other site 651182002556 Switch I region; other site 651182002557 G3 box; other site 651182002558 Switch II region; other site 651182002559 G4 box; other site 651182002560 G5 box; other site 651182002561 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 651182002562 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 651182002563 binding surface 651182002564 TPR motif; other site 651182002565 TPR repeat; Region: TPR_11; pfam13414 651182002566 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 651182002567 binding surface 651182002568 TPR repeat; Region: TPR_11; pfam13414 651182002569 TPR motif; other site 651182002570 TPR repeat; Region: TPR_11; pfam13414 651182002571 Sporulation related domain; Region: SPOR; pfam05036 651182002572 CHASE2 domain; Region: CHASE2; pfam05226 651182002573 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 651182002574 cyclase homology domain; Region: CHD; cd07302 651182002575 nucleotidyl binding site; other site 651182002576 metal binding site [ion binding]; metal-binding site 651182002577 dimer interface [polypeptide binding]; other site 651182002578 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 651182002579 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 651182002580 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 651182002581 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 651182002582 SLBB domain; Region: SLBB; pfam10531 651182002583 SLBB domain; Region: SLBB; pfam10531 651182002584 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 651182002585 Chain length determinant protein; Region: Wzz; pfam02706 651182002586 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 651182002587 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 651182002588 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 651182002589 P-loop; other site 651182002590 Magnesium ion binding site [ion binding]; other site 651182002591 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 651182002592 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 651182002593 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182002594 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 651182002595 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 651182002596 Mg++ binding site [ion binding]; other site 651182002597 putative catalytic motif [active] 651182002598 substrate binding site [chemical binding]; other site 651182002599 HipA-like N-terminal domain; Region: HipA_N; pfam07805 651182002600 HipA-like C-terminal domain; Region: HipA_C; pfam07804 651182002601 HipA N-terminal domain; Region: Couple_hipA; pfam13657 651182002602 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 651182002603 non-specific DNA binding site [nucleotide binding]; other site 651182002604 salt bridge; other site 651182002605 sequence-specific DNA binding site [nucleotide binding]; other site 651182002606 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 651182002607 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 651182002608 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 651182002609 active site 651182002610 NTP binding site [chemical binding]; other site 651182002611 metal binding triad [ion binding]; metal-binding site 651182002612 antibiotic binding site [chemical binding]; other site 651182002613 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 651182002614 PemK-like protein; Region: PemK; pfam02452 651182002615 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 651182002616 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 651182002617 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 651182002618 Helix-turn-helix domain; Region: HTH_17; cl17695 651182002619 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 651182002620 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 651182002621 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 651182002622 homodimer interface [polypeptide binding]; other site 651182002623 NAD(P) binding site [chemical binding]; other site 651182002624 substrate binding site [chemical binding]; other site 651182002625 active site 651182002626 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 651182002627 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 651182002628 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 651182002629 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 651182002630 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 651182002631 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 651182002632 CoA binding domain; Region: CoA_binding; cl17356 651182002633 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 651182002634 NAD(P) binding site [chemical binding]; other site 651182002635 homodimer interface [polypeptide binding]; other site 651182002636 substrate binding site [chemical binding]; other site 651182002637 active site 651182002638 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 651182002639 Bacterial sugar transferase; Region: Bac_transf; pfam02397 651182002640 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 651182002641 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 651182002642 inhibitor-cofactor binding pocket; inhibition site 651182002643 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182002644 catalytic residue [active] 651182002645 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 651182002646 S-adenosylmethionine binding site [chemical binding]; other site 651182002647 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 651182002648 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 651182002649 Ligand binding site; other site 651182002650 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 651182002651 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 651182002652 active site 651182002653 homodimer interface [polypeptide binding]; other site 651182002654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182002655 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 651182002656 NAD(P) binding site [chemical binding]; other site 651182002657 active site 651182002658 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 651182002659 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 651182002660 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 651182002661 NAD(P) binding site [chemical binding]; other site 651182002662 homodimer interface [polypeptide binding]; other site 651182002663 substrate binding site [chemical binding]; other site 651182002664 active site 651182002665 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 651182002666 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182002667 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 651182002668 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 651182002669 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182002670 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182002671 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 651182002672 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 651182002673 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182002674 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 651182002675 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 651182002676 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 651182002677 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 651182002678 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 651182002679 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 651182002680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182002681 NAD(P) binding site [chemical binding]; other site 651182002682 active site 651182002683 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 651182002684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182002685 NAD(P) binding site [chemical binding]; other site 651182002686 active site 651182002687 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 651182002688 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 651182002689 NAD(P) binding site [chemical binding]; other site 651182002690 homodimer interface [polypeptide binding]; other site 651182002691 substrate binding site [chemical binding]; other site 651182002692 active site 651182002693 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 651182002694 hypothetical protein; Provisional; Region: PRK09956 651182002695 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 651182002696 HrpA pilus formation protein; Region: HrpA_pilin; pfam09589 651182002697 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 651182002698 catalytic residue [active] 651182002699 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 651182002700 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]; Region: COG1724 651182002701 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 651182002702 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 651182002703 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 651182002704 Beta-Casp domain; Region: Beta-Casp; smart01027 651182002705 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 651182002706 Protein of unknown function DUF86; Region: DUF86; cl01031 651182002707 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 651182002708 catalytic residue [active] 651182002709 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 651182002710 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 651182002711 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 651182002712 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 651182002713 YcfA-like protein; Region: YcfA; cl00752 651182002714 Transposase IS200 like; Region: Y1_Tnp; cl00848 651182002715 Protein of unknown function DUF86; Region: DUF86; cl01031 651182002716 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 651182002717 active site 651182002718 NTP binding site [chemical binding]; other site 651182002719 metal binding triad [ion binding]; metal-binding site 651182002720 antibiotic binding site [chemical binding]; other site 651182002721 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 651182002722 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 651182002723 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 651182002724 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 651182002725 O-Antigen ligase; Region: Wzy_C; pfam04932 651182002726 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 651182002727 binding surface 651182002728 TPR repeat; Region: TPR_11; pfam13414 651182002729 TPR motif; other site 651182002730 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 651182002731 TPR motif; other site 651182002732 TPR repeat; Region: TPR_11; pfam13414 651182002733 binding surface 651182002734 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 651182002735 ATP-sulfurylase; Region: ATPS; cd00517 651182002736 active site 651182002737 HXXH motif; other site 651182002738 flexible loop; other site 651182002739 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 651182002740 ligand-binding site [chemical binding]; other site 651182002741 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 651182002742 MPT binding site; other site 651182002743 trimer interface [polypeptide binding]; other site 651182002744 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 651182002745 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 651182002746 active site 651182002747 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 651182002748 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 651182002749 GTP binding site; other site 651182002750 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cl00399 651182002751 MoaD interaction [polypeptide binding]; other site 651182002752 active site residues [active] 651182002753 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 651182002754 trimer interface [polypeptide binding]; other site 651182002755 dimer interface [polypeptide binding]; other site 651182002756 putative active site [active] 651182002757 RmuC family; Region: RmuC; pfam02646 651182002758 MltA specific insert domain; Region: MltA; smart00925 651182002759 3D domain; Region: 3D; pfam06725 651182002760 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 651182002761 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 651182002762 Walker A/P-loop; other site 651182002763 ATP binding site [chemical binding]; other site 651182002764 Q-loop/lid; other site 651182002765 ABC transporter signature motif; other site 651182002766 Walker B; other site 651182002767 D-loop; other site 651182002768 H-loop/switch region; other site 651182002769 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 651182002770 dimer interface [polypeptide binding]; other site 651182002771 conserved gate region; other site 651182002772 putative PBP binding loops; other site 651182002773 ABC-ATPase subunit interface; other site 651182002774 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 651182002775 PBP superfamily domain; Region: PBP_like_2; pfam12849 651182002776 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 651182002777 Amidohydrolase; Region: Amidohydro_2; pfam04909 651182002778 active site 651182002779 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 651182002780 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 651182002781 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 651182002782 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 651182002783 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 651182002784 tRNA; other site 651182002785 putative tRNA binding site [nucleotide binding]; other site 651182002786 putative NADP binding site [chemical binding]; other site 651182002787 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 651182002788 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 651182002789 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 651182002790 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 651182002791 active site 651182002792 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 651182002793 ribonuclease III; Reviewed; Region: rnc; PRK00102 651182002794 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 651182002795 dimerization interface [polypeptide binding]; other site 651182002796 active site 651182002797 metal binding site [ion binding]; metal-binding site 651182002798 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 651182002799 dsRNA binding site [nucleotide binding]; other site 651182002800 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182002801 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 651182002802 FeS/SAM binding site; other site 651182002803 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 651182002804 Transglycosylase; Region: Transgly; pfam00912 651182002805 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 651182002806 RNA binding site [nucleotide binding]; other site 651182002807 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 651182002808 Response regulator receiver domain; Region: Response_reg; pfam00072 651182002809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182002810 active site 651182002811 phosphorylation site [posttranslational modification] 651182002812 intermolecular recognition site; other site 651182002813 dimerization interface [polypeptide binding]; other site 651182002814 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182002815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182002816 active site 651182002817 phosphorylation site [posttranslational modification] 651182002818 intermolecular recognition site; other site 651182002819 dimerization interface [polypeptide binding]; other site 651182002820 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182002821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182002822 metal binding site [ion binding]; metal-binding site 651182002823 active site 651182002824 I-site; other site 651182002825 PAS domain S-box; Region: sensory_box; TIGR00229 651182002826 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182002827 putative active site [active] 651182002828 heme pocket [chemical binding]; other site 651182002829 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182002830 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 651182002831 dimer interface [polypeptide binding]; other site 651182002832 phosphorylation site [posttranslational modification] 651182002833 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 651182002834 ATP binding site [chemical binding]; other site 651182002835 Mg2+ binding site [ion binding]; other site 651182002836 G-X-G motif; other site 651182002837 Response regulator receiver domain; Region: Response_reg; pfam00072 651182002838 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182002839 active site 651182002840 phosphorylation site [posttranslational modification] 651182002841 intermolecular recognition site; other site 651182002842 dimerization interface [polypeptide binding]; other site 651182002843 Response regulator receiver domain; Region: Response_reg; pfam00072 651182002844 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182002845 active site 651182002846 phosphorylation site [posttranslational modification] 651182002847 intermolecular recognition site; other site 651182002848 dimerization interface [polypeptide binding]; other site 651182002849 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 651182002850 putative binding surface; other site 651182002851 active site 651182002852 GH3 auxin-responsive promoter; Region: GH3; pfam03321 651182002853 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 651182002854 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 651182002855 S-adenosylmethionine binding site [chemical binding]; other site 651182002856 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 651182002857 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 651182002858 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 651182002859 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 651182002860 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 651182002861 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 651182002862 Phosphoesterase family; Region: Phosphoesterase; pfam04185 651182002863 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 651182002864 NAD(P) binding pocket [chemical binding]; other site 651182002865 Choline Kinase (ChoK). The ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 651182002866 Phosphotransferase enzyme family; Region: APH; pfam01636 651182002867 active site 651182002868 ATP binding site [chemical binding]; other site 651182002869 substrate binding site [chemical binding]; other site 651182002870 dimer interface [polypeptide binding]; other site 651182002871 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 651182002872 S-adenosylmethionine binding site [chemical binding]; other site 651182002873 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 651182002874 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 651182002875 Predicted integral membrane protein [Function unknown]; Region: COG5652 651182002876 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 651182002877 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 651182002878 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 651182002879 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 651182002880 active site 651182002881 dimer interface [polypeptide binding]; other site 651182002882 motif 1; other site 651182002883 motif 2; other site 651182002884 motif 3; other site 651182002885 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 651182002886 anticodon binding site; other site 651182002887 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 651182002888 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 651182002889 catalytic site [active] 651182002890 putative active site [active] 651182002891 putative substrate binding site [chemical binding]; other site 651182002892 HRDC domain; Region: HRDC; pfam00570 651182002893 HRDC domain; Region: HRDC; pfam00570 651182002894 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 651182002895 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 651182002896 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 651182002897 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 651182002898 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 651182002899 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182002900 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182002901 4Fe-4S binding domain; Region: Fer4_6; pfam12837 651182002902 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182002903 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182002904 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 651182002905 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 651182002906 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 651182002907 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 651182002908 active site residue [active] 651182002909 Rhomboid family; Region: Rhomboid; pfam01694 651182002910 Flagellar protein YcgR; Region: YcgR_2; pfam12945 651182002911 PilZ domain; Region: PilZ; pfam07238 651182002912 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 651182002913 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 651182002914 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 651182002915 dimer interface [polypeptide binding]; other site 651182002916 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 651182002917 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 651182002918 putative active site [active] 651182002919 heme pocket [chemical binding]; other site 651182002920 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 651182002921 dimer interface [polypeptide binding]; other site 651182002922 phosphorylation site [posttranslational modification] 651182002923 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 651182002924 ATP binding site [chemical binding]; other site 651182002925 Mg2+ binding site [ion binding]; other site 651182002926 G-X-G motif; other site 651182002927 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182002928 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182002929 active site 651182002930 phosphorylation site [posttranslational modification] 651182002931 intermolecular recognition site; other site 651182002932 dimerization interface [polypeptide binding]; other site 651182002933 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 651182002934 Walker A motif; other site 651182002935 ATP binding site [chemical binding]; other site 651182002936 Walker B motif; other site 651182002937 arginine finger; other site 651182002938 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182002939 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 651182002940 Chorismate mutase type II; Region: CM_2; smart00830 651182002941 prephenate dehydrogenase; Provisional; Region: PRK06444 651182002942 PAS domain; Region: PAS; smart00091 651182002943 PAS domain; Region: PAS_9; pfam13426 651182002944 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182002945 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 651182002946 dimer interface [polypeptide binding]; other site 651182002947 phosphorylation site [posttranslational modification] 651182002948 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 651182002949 ATP binding site [chemical binding]; other site 651182002950 Mg2+ binding site [ion binding]; other site 651182002951 G-X-G motif; other site 651182002952 Response regulator receiver domain; Region: Response_reg; pfam00072 651182002953 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182002954 active site 651182002955 phosphorylation site [posttranslational modification] 651182002956 intermolecular recognition site; other site 651182002957 dimerization interface [polypeptide binding]; other site 651182002958 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 651182002959 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182002960 putative active site [active] 651182002961 heme pocket [chemical binding]; other site 651182002962 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 651182002963 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182002964 putative active site [active] 651182002965 heme pocket [chemical binding]; other site 651182002966 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 651182002967 dimer interface [polypeptide binding]; other site 651182002968 phosphorylation site [posttranslational modification] 651182002969 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 651182002970 ATP binding site [chemical binding]; other site 651182002971 Mg2+ binding site [ion binding]; other site 651182002972 G-X-G motif; other site 651182002973 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 651182002974 DNA binding residues [nucleotide binding] 651182002975 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 651182002976 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182002977 active site 651182002978 phosphorylation site [posttranslational modification] 651182002979 intermolecular recognition site; other site 651182002980 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; cl00246 651182002981 FAD binding site [chemical binding]; other site 651182002982 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182002983 Cysteine-rich domain; Region: CCG; pfam02754 651182002984 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182002985 4Fe-4S binding domain; Region: Fer4; pfam00037 651182002986 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 651182002987 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182002988 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 651182002989 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182002990 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182002991 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 651182002992 4Fe-4S binding domain; Region: Fer4; pfam00037 651182002993 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 651182002994 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182002995 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 651182002996 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 651182002997 FAD binding site [chemical binding]; other site 651182002998 HipA N-terminal domain; Region: Couple_hipA; cl11853 651182002999 HipA-like N-terminal domain; Region: HipA_N; pfam07805 651182003000 HipA-like C-terminal domain; Region: HipA_C; pfam07804 651182003001 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 651182003002 non-specific DNA binding site [nucleotide binding]; other site 651182003003 salt bridge; other site 651182003004 sequence-specific DNA binding site [nucleotide binding]; other site 651182003005 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 651182003006 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 651182003007 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182003008 dimer interface [polypeptide binding]; other site 651182003009 putative CheW interface [polypeptide binding]; other site 651182003010 mce related protein; Region: MCE; pfam02470 651182003011 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 651182003012 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 651182003013 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 651182003014 HlyD family secretion protein; Region: HlyD_3; pfam13437 651182003015 Transcriptional regulators [Transcription]; Region: MarR; COG1846 651182003016 MarR family; Region: MarR_2; pfam12802 651182003017 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 651182003018 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 651182003019 intersubunit interface [polypeptide binding]; other site 651182003020 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 651182003021 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 651182003022 N-terminal plug; other site 651182003023 ligand-binding site [chemical binding]; other site 651182003024 Helix-turn-helix domain; Region: HTH_18; pfam12833 651182003025 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 651182003026 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 651182003027 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 651182003028 N-terminal plug; other site 651182003029 ligand-binding site [chemical binding]; other site 651182003030 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 651182003031 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 651182003032 intersubunit interface [polypeptide binding]; other site 651182003033 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 651182003034 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 651182003035 ABC-ATPase subunit interface; other site 651182003036 dimer interface [polypeptide binding]; other site 651182003037 putative PBP binding regions; other site 651182003038 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 651182003039 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 651182003040 Walker A/P-loop; other site 651182003041 ATP binding site [chemical binding]; other site 651182003042 Q-loop/lid; other site 651182003043 ABC transporter signature motif; other site 651182003044 Walker B; other site 651182003045 D-loop; other site 651182003046 H-loop/switch region; other site 651182003047 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 651182003048 S-adenosylmethionine binding site [chemical binding]; other site 651182003049 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 651182003050 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 651182003051 intersubunit interface [polypeptide binding]; other site 651182003052 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 651182003053 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 651182003054 ABC-ATPase subunit interface; other site 651182003055 dimer interface [polypeptide binding]; other site 651182003056 putative PBP binding regions; other site 651182003057 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 651182003058 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 651182003059 Walker A/P-loop; other site 651182003060 ATP binding site [chemical binding]; other site 651182003061 Q-loop/lid; other site 651182003062 ABC transporter signature motif; other site 651182003063 Walker B; other site 651182003064 D-loop; other site 651182003065 H-loop/switch region; other site 651182003066 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 651182003067 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; cl15377 651182003068 FeS/SAM binding site; other site 651182003069 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 651182003070 nucleoside/Zn binding site; other site 651182003071 dimer interface [polypeptide binding]; other site 651182003072 catalytic motif [active] 651182003073 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 651182003074 S-adenosylmethionine binding site [chemical binding]; other site 651182003075 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 651182003076 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 651182003077 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 651182003078 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 651182003079 Domain of unknown function (DUF364); Region: DUF364; pfam04016 651182003080 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 651182003081 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 651182003082 catalytic loop [active] 651182003083 iron binding site [ion binding]; other site 651182003084 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 651182003085 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 651182003086 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 651182003087 [4Fe-4S] binding site [ion binding]; other site 651182003088 molybdopterin cofactor binding site; other site 651182003089 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 651182003090 molybdopterin cofactor binding site; other site 651182003091 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 651182003092 molybdopterin cofactor binding site; other site 651182003093 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 651182003094 molybdopterin cofactor binding site; other site 651182003095 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 651182003096 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 651182003097 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 651182003098 active site 651182003099 metal binding site [ion binding]; metal-binding site 651182003100 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 651182003101 dimerization interface [polypeptide binding]; other site 651182003102 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182003103 PAS domain; Region: PAS_9; pfam13426 651182003104 putative active site [active] 651182003105 heme pocket [chemical binding]; other site 651182003106 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 651182003107 Histidine kinase; Region: HisKA_2; pfam07568 651182003108 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 651182003109 ATP binding site [chemical binding]; other site 651182003110 Mg2+ binding site [ion binding]; other site 651182003111 G-X-G motif; other site 651182003112 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 651182003113 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182003114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003115 active site 651182003116 phosphorylation site [posttranslational modification] 651182003117 intermolecular recognition site; other site 651182003118 dimerization interface [polypeptide binding]; other site 651182003119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 651182003120 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 651182003121 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 651182003122 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 651182003123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3416 651182003124 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 651182003125 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 651182003126 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 651182003127 N-terminal plug; other site 651182003128 ligand-binding site [chemical binding]; other site 651182003129 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 651182003130 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 651182003131 intersubunit interface [polypeptide binding]; other site 651182003132 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 651182003133 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 651182003134 Walker A/P-loop; other site 651182003135 ATP binding site [chemical binding]; other site 651182003136 Q-loop/lid; other site 651182003137 ABC transporter signature motif; other site 651182003138 Walker B; other site 651182003139 D-loop; other site 651182003140 H-loop/switch region; other site 651182003141 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 651182003142 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 651182003143 ABC-ATPase subunit interface; other site 651182003144 dimer interface [polypeptide binding]; other site 651182003145 putative PBP binding regions; other site 651182003146 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 651182003147 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 651182003148 N-terminal plug; other site 651182003149 ligand-binding site [chemical binding]; other site 651182003150 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 651182003151 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 651182003152 intersubunit interface [polypeptide binding]; other site 651182003153 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 651182003154 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 651182003155 ABC-ATPase subunit interface; other site 651182003156 dimer interface [polypeptide binding]; other site 651182003157 putative PBP binding regions; other site 651182003158 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 651182003159 ABC transporter; Region: ABC_tran; pfam00005 651182003160 Q-loop/lid; other site 651182003161 ABC transporter signature motif; other site 651182003162 Walker B; other site 651182003163 D-loop; other site 651182003164 H-loop/switch region; other site 651182003165 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 651182003166 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 651182003167 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 651182003168 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 651182003169 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 651182003170 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 651182003171 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 651182003172 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 651182003173 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182003174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182003175 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182003176 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182003177 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182003178 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182003179 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182003180 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 651182003181 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 651182003182 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 651182003183 HAMP domain; Region: HAMP; pfam00672 651182003184 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 651182003185 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 651182003186 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 651182003187 Walker A motif; other site 651182003188 ATP binding site [chemical binding]; other site 651182003189 Walker B motif; other site 651182003190 arginine finger; other site 651182003191 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 651182003192 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 651182003193 CheB methylesterase; Region: CheB_methylest; pfam01339 651182003194 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 651182003195 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 651182003196 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 651182003197 Prefoldin subunit; Region: Prefoldin_2; pfam01920 651182003198 PAS domain; Region: PAS_10; pfam13596 651182003199 PAS domain S-box; Region: sensory_box; TIGR00229 651182003200 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182003201 putative active site [active] 651182003202 heme pocket [chemical binding]; other site 651182003203 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182003204 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 651182003205 putative active site [active] 651182003206 heme pocket [chemical binding]; other site 651182003207 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182003208 putative active site [active] 651182003209 heme pocket [chemical binding]; other site 651182003210 PAS domain; Region: PAS; smart00091 651182003211 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182003212 putative active site [active] 651182003213 heme pocket [chemical binding]; other site 651182003214 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 651182003215 dimer interface [polypeptide binding]; other site 651182003216 phosphorylation site [posttranslational modification] 651182003217 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 651182003218 ATP binding site [chemical binding]; other site 651182003219 Mg2+ binding site [ion binding]; other site 651182003220 G-X-G motif; other site 651182003221 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 651182003222 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 651182003223 ligand binding site [chemical binding]; other site 651182003224 BON domain; Region: BON; pfam04972 651182003225 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 651182003226 CoA binding domain; Region: CoA_binding_2; pfam13380 651182003227 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 651182003228 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 651182003229 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 651182003230 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 651182003231 Coenzyme A binding pocket [chemical binding]; other site 651182003232 SPFH domain / Band 7 family; Region: Band_7; pfam01145 651182003233 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 651182003234 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 651182003235 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 651182003236 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cd02106 651182003237 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 651182003238 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 651182003239 B12 binding site [chemical binding]; other site 651182003240 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 651182003241 FeS/SAM binding site; other site 651182003242 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 651182003243 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 651182003244 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 651182003245 non-heme iron binding site [ion binding]; other site 651182003246 dimer interface [polypeptide binding]; other site 651182003247 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 651182003248 ACS interaction site; other site 651182003249 CODH interaction site; other site 651182003250 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 651182003251 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 651182003252 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 651182003253 ATP binding site [chemical binding]; other site 651182003254 Walker B motif; other site 651182003255 arginine finger; other site 651182003256 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182003257 cyanophycin synthetase; Provisional; Region: PRK14016 651182003258 ATP-grasp domain; Region: ATP-grasp_4; cl17255 651182003259 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 651182003260 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 651182003261 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 651182003262 proposed catalytic triad [active] 651182003263 active site nucleophile [active] 651182003264 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 651182003265 active site 651182003266 dimer interface [polypeptide binding]; other site 651182003267 catalytic nucleophile [active] 651182003268 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 651182003269 synthetase active site [active] 651182003270 NTP binding site [chemical binding]; other site 651182003271 metal binding site [ion binding]; metal-binding site 651182003272 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 651182003273 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 651182003274 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 651182003275 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 651182003276 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 651182003277 AIR carboxylase; Region: AIRC; pfam00731 651182003278 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 651182003279 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 651182003280 ATP-grasp domain; Region: ATP-grasp_4; cl17255 651182003281 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 651182003282 Short C-terminal domain; Region: SHOCT; pfam09851 651182003283 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 651182003284 Sporulation and spore germination; Region: Germane; pfam10646 651182003285 elongation factor G; Reviewed; Region: PRK00007 651182003286 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 651182003287 G1 box; other site 651182003288 putative GEF interaction site [polypeptide binding]; other site 651182003289 GTP/Mg2+ binding site [chemical binding]; other site 651182003290 Switch I region; other site 651182003291 G2 box; other site 651182003292 G3 box; other site 651182003293 Switch II region; other site 651182003294 G4 box; other site 651182003295 G5 box; other site 651182003296 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 651182003297 Elongation factor G, domain IV; Region: EFG_IV; smart00889 651182003298 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 651182003299 Peptidase family M48; Region: Peptidase_M48; cl12018 651182003300 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 651182003301 binding surface 651182003302 TPR motif; other site 651182003303 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 651182003304 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 651182003305 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 651182003306 ligand binding site [chemical binding]; other site 651182003307 flexible hinge region; other site 651182003308 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 651182003309 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 651182003310 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 651182003311 4Fe-4S binding domain; Region: Fer4; pfam00037 651182003312 4Fe-4S binding domain; Region: Fer4; pfam00037 651182003313 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 651182003314 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 651182003315 active site 651182003316 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 651182003317 active site 651182003318 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 651182003319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182003320 NAD(P) binding site [chemical binding]; other site 651182003321 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 651182003322 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182003323 active site 651182003324 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 651182003325 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 651182003326 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 651182003327 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 651182003328 NAD(P) binding pocket [chemical binding]; other site 651182003329 FOG: CBS domain [General function prediction only]; Region: COG0517 651182003330 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 651182003331 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182003332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003333 active site 651182003334 phosphorylation site [posttranslational modification] 651182003335 intermolecular recognition site; other site 651182003336 dimerization interface [polypeptide binding]; other site 651182003337 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 651182003338 dimerization interface [polypeptide binding]; other site 651182003339 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182003340 putative active site [active] 651182003341 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 651182003342 heme pocket [chemical binding]; other site 651182003343 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 651182003344 dimer interface [polypeptide binding]; other site 651182003345 phosphorylation site [posttranslational modification] 651182003346 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 651182003347 ATP binding site [chemical binding]; other site 651182003348 Mg2+ binding site [ion binding]; other site 651182003349 G-X-G motif; other site 651182003350 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 651182003351 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 651182003352 peptide binding site [polypeptide binding]; other site 651182003353 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 651182003354 purine monophosphate binding site [chemical binding]; other site 651182003355 dimer interface [polypeptide binding]; other site 651182003356 putative catalytic residues [active] 651182003357 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 651182003358 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 651182003359 RNB domain; Region: RNB; pfam00773 651182003360 Smr domain; Region: Smr; pfam01713 651182003361 YceG-like family; Region: YceG; pfam02618 651182003362 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 651182003363 dimerization interface [polypeptide binding]; other site 651182003364 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 651182003365 4Fe-4S binding domain; Region: Fer4; pfam00037 651182003366 putative oxidoreductase; Provisional; Region: PRK12831 651182003367 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182003368 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 651182003369 Predicted NADH:ubiquinone oxidoreductase, subunit RnfA [Energy production and conversion]; Region: RnfA; COG4657 651182003370 electron transport complex RsxE subunit; Provisional; Region: PRK12405 651182003371 FMN-binding domain; Region: FMN_bind; cl01081 651182003372 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 651182003373 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 651182003374 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 651182003375 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 651182003376 heme-binding residues [chemical binding]; other site 651182003377 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 651182003378 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 651182003379 binding surface 651182003380 TPR motif; other site 651182003381 Tetratricopeptide repeat; Region: TPR_12; pfam13424 651182003382 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 651182003383 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 651182003384 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 651182003385 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 651182003386 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 651182003387 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 651182003388 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 651182003389 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 651182003390 ABC transporter; Region: ABC_tran_2; pfam12848 651182003391 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 651182003392 ABC transporter; Region: ABC_tran_2; pfam12848 651182003393 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 651182003394 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 651182003395 Tetratricopeptide repeat; Region: TPR_12; pfam13424 651182003396 Tetratricopeptide repeat; Region: TPR_10; cl17452 651182003397 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 651182003398 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 651182003399 substrate binding pocket [chemical binding]; other site 651182003400 membrane-bound complex binding site; other site 651182003401 hinge residues; other site 651182003402 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 651182003403 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 651182003404 dimer interface [polypeptide binding]; other site 651182003405 conserved gate region; other site 651182003406 putative PBP binding loops; other site 651182003407 ABC-ATPase subunit interface; other site 651182003408 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 651182003409 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 651182003410 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 651182003411 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 651182003412 PBP superfamily domain; Region: PBP_like_2; cl17296 651182003413 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 651182003414 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 651182003415 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 651182003416 ABC-ATPase subunit interface; other site 651182003417 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 651182003418 dimer interface [polypeptide binding]; other site 651182003419 conserved gate region; other site 651182003420 putative PBP binding loops; other site 651182003421 ABC-ATPase subunit interface; other site 651182003422 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14273 651182003423 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 651182003424 Walker A/P-loop; other site 651182003425 ATP binding site [chemical binding]; other site 651182003426 Q-loop/lid; other site 651182003427 ABC transporter signature motif; other site 651182003428 Walker B; other site 651182003429 D-loop; other site 651182003430 H-loop/switch region; other site 651182003431 Soluble P-type ATPase [General function prediction only]; Region: COG4087 651182003432 CGGC domain; Region: CGGC; cl02356 651182003433 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 651182003434 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 651182003435 ABC-ATPase subunit interface; other site 651182003436 dimer interface [polypeptide binding]; other site 651182003437 putative PBP binding regions; other site 651182003438 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 651182003439 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 651182003440 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 651182003441 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 651182003442 putative metal binding residues [ion binding]; other site 651182003443 Response regulator receiver domain; Region: Response_reg; pfam00072 651182003444 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003445 active site 651182003446 phosphorylation site [posttranslational modification] 651182003447 intermolecular recognition site; other site 651182003448 dimerization interface [polypeptide binding]; other site 651182003449 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182003450 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 651182003451 dimer interface [polypeptide binding]; other site 651182003452 phosphorylation site [posttranslational modification] 651182003453 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 651182003454 ATP binding site [chemical binding]; other site 651182003455 Mg2+ binding site [ion binding]; other site 651182003456 G-X-G motif; other site 651182003457 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 651182003458 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003459 active site 651182003460 phosphorylation site [posttranslational modification] 651182003461 intermolecular recognition site; other site 651182003462 dimerization interface [polypeptide binding]; other site 651182003463 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 651182003464 DNA binding site [nucleotide binding] 651182003465 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 651182003466 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 651182003467 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 651182003468 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182003469 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 651182003470 FeS/SAM binding site; other site 651182003471 Tetratricopeptide repeat; Region: TPR_16; pfam13432 651182003472 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 651182003473 TPR motif; other site 651182003474 Tetratricopeptide repeat; Region: TPR_16; pfam13432 651182003475 binding surface 651182003476 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 651182003477 FMN binding site [chemical binding]; other site 651182003478 dimer interface [polypeptide binding]; other site 651182003479 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 651182003480 active site 651182003481 dimerization interface [polypeptide binding]; other site 651182003482 Putative Fe-S cluster; Region: FeS; cl17515 651182003483 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 651182003484 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 651182003485 DNA binding residues [nucleotide binding] 651182003486 dimerization interface [polypeptide binding]; other site 651182003487 Putative Fe-S cluster; Region: FeS; cl17515 651182003488 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 651182003489 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 651182003490 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 651182003491 active site 651182003492 FMN binding site [chemical binding]; other site 651182003493 substrate binding site [chemical binding]; other site 651182003494 putative catalytic residue [active] 651182003495 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 651182003496 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 651182003497 CoA binding domain; Region: CoA_binding_2; pfam13380 651182003498 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 651182003499 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 651182003500 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 651182003501 catalytic residue [active] 651182003502 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 651182003503 DctM-like transporters; Region: DctM; pfam06808 651182003504 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 651182003505 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 651182003506 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 651182003507 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 651182003508 Domain of unknown function DUF20; Region: UPF0118; pfam01594 651182003509 Putative zinc-finger; Region: zf-HC2; pfam13490 651182003510 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 651182003511 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 651182003512 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 651182003513 DNA binding residues [nucleotide binding] 651182003514 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 651182003515 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 651182003516 FeS/SAM binding site; other site 651182003517 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 651182003518 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 651182003519 active site 651182003520 SAM binding site [chemical binding]; other site 651182003521 homodimer interface [polypeptide binding]; other site 651182003522 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 651182003523 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 651182003524 active site 651182003525 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 651182003526 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 651182003527 domain interfaces; other site 651182003528 active site 651182003529 HAMP domain; Region: HAMP; pfam00672 651182003530 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182003531 dimerization interface [polypeptide binding]; other site 651182003532 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 651182003533 dimer interface [polypeptide binding]; other site 651182003534 phosphorylation site [posttranslational modification] 651182003535 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 651182003536 ATP binding site [chemical binding]; other site 651182003537 Mg2+ binding site [ion binding]; other site 651182003538 G-X-G motif; other site 651182003539 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182003540 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003541 active site 651182003542 phosphorylation site [posttranslational modification] 651182003543 intermolecular recognition site; other site 651182003544 dimerization interface [polypeptide binding]; other site 651182003545 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 651182003546 Walker A motif; other site 651182003547 ATP binding site [chemical binding]; other site 651182003548 Walker B motif; other site 651182003549 arginine finger; other site 651182003550 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 651182003551 hypothetical protein; Provisional; Region: PRK14852 651182003552 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 651182003553 dimer interface [polypeptide binding]; other site 651182003554 active site 651182003555 TPR repeat; Region: TPR_11; pfam13414 651182003556 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 651182003557 TPR motif; other site 651182003558 TPR repeat; Region: TPR_11; pfam13414 651182003559 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 651182003560 binding surface 651182003561 TPR motif; other site 651182003562 Tetratricopeptide repeat; Region: TPR_16; pfam13432 651182003563 selenocysteine synthase; Provisional; Region: PRK04311 651182003564 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 651182003565 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 651182003566 CheD chemotactic sensory transduction; Region: CheD; cl00810 651182003567 HDOD domain; Region: HDOD; pfam08668 651182003568 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182003569 Zn2+ binding site [ion binding]; other site 651182003570 Mg2+ binding site [ion binding]; other site 651182003571 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 651182003572 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 651182003573 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 651182003574 HlyD family secretion protein; Region: HlyD_3; pfam13437 651182003575 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 651182003576 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 651182003577 CoA binding domain; Region: CoA_binding_2; pfam13380 651182003578 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 651182003579 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 651182003580 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 651182003581 active site 651182003582 dimer interface [polypeptide binding]; other site 651182003583 aspartate kinase; Reviewed; Region: PRK06635 651182003584 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 651182003585 putative nucleotide binding site [chemical binding]; other site 651182003586 putative catalytic residues [active] 651182003587 putative Mg ion binding site [ion binding]; other site 651182003588 putative aspartate binding site [chemical binding]; other site 651182003589 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 651182003590 putative allosteric regulatory site; other site 651182003591 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 651182003592 putative allosteric regulatory residue; other site 651182003593 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 651182003594 Uncharacterized conserved protein [Function unknown]; Region: COG0062 651182003595 putative carbohydrate kinase; Provisional; Region: PRK10565 651182003596 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 651182003597 putative substrate binding site [chemical binding]; other site 651182003598 putative ATP binding site [chemical binding]; other site 651182003599 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 651182003600 PAS domain; Region: PAS_9; pfam13426 651182003601 PAS fold; Region: PAS_3; pfam08447 651182003602 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 651182003603 PAS domain S-box; Region: sensory_box; TIGR00229 651182003604 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182003605 putative active site [active] 651182003606 heme pocket [chemical binding]; other site 651182003607 PAS domain S-box; Region: sensory_box; TIGR00229 651182003608 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182003609 putative active site [active] 651182003610 heme pocket [chemical binding]; other site 651182003611 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 651182003612 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 651182003613 ATP binding site [chemical binding]; other site 651182003614 Mg2+ binding site [ion binding]; other site 651182003615 G-X-G motif; other site 651182003616 Response regulator receiver domain; Region: Response_reg; pfam00072 651182003617 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003618 active site 651182003619 phosphorylation site [posttranslational modification] 651182003620 intermolecular recognition site; other site 651182003621 dimerization interface [polypeptide binding]; other site 651182003622 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182003623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003624 active site 651182003625 phosphorylation site [posttranslational modification] 651182003626 intermolecular recognition site; other site 651182003627 dimerization interface [polypeptide binding]; other site 651182003628 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 651182003629 Walker A motif; other site 651182003630 ATP binding site [chemical binding]; other site 651182003631 Walker B motif; other site 651182003632 arginine finger; other site 651182003633 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182003634 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 651182003635 putative CheA interaction surface; other site 651182003636 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 651182003637 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182003638 dimer interface [polypeptide binding]; other site 651182003639 putative CheW interface [polypeptide binding]; other site 651182003640 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 651182003641 GAF domain; Region: GAF_2; pfam13185 651182003642 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182003643 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182003644 putative active site [active] 651182003645 heme pocket [chemical binding]; other site 651182003646 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 651182003647 dimer interface [polypeptide binding]; other site 651182003648 phosphorylation site [posttranslational modification] 651182003649 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 651182003650 ATP binding site [chemical binding]; other site 651182003651 Mg2+ binding site [ion binding]; other site 651182003652 G-X-G motif; other site 651182003653 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182003654 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003655 active site 651182003656 phosphorylation site [posttranslational modification] 651182003657 intermolecular recognition site; other site 651182003658 dimerization interface [polypeptide binding]; other site 651182003659 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 651182003660 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 651182003661 HlyD family secretion protein; Region: HlyD_3; pfam13437 651182003662 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 651182003663 homotrimer interaction site [polypeptide binding]; other site 651182003664 zinc binding site [ion binding]; other site 651182003665 CDP-binding sites; other site 651182003666 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 651182003667 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 651182003668 active site 651182003669 HIGH motif; other site 651182003670 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 651182003671 KMSKS motif; other site 651182003672 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 651182003673 tRNA binding surface [nucleotide binding]; other site 651182003674 anticodon binding site; other site 651182003675 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 651182003676 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 651182003677 active site 651182003678 HIGH motif; other site 651182003679 nucleotide binding site [chemical binding]; other site 651182003680 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 651182003681 KMSKS motif; other site 651182003682 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 651182003683 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 651182003684 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 651182003685 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 651182003686 ABC transporter; Region: ABC_tran_2; pfam12848 651182003687 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 651182003688 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 651182003689 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 651182003690 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 651182003691 active site 651182003692 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 651182003693 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 651182003694 CoA binding domain; Region: CoA_binding_2; pfam13380 651182003695 excinuclease ABC subunit B; Provisional; Region: PRK05298 651182003696 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 651182003697 ATP binding site [chemical binding]; other site 651182003698 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 651182003699 nucleotide binding region [chemical binding]; other site 651182003700 ATP-binding site [chemical binding]; other site 651182003701 Ultra-violet resistance protein B; Region: UvrB; pfam12344 651182003702 UvrB/uvrC motif; Region: UVR; pfam02151 651182003703 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 651182003704 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 651182003705 GIY-YIG motif/motif A; other site 651182003706 active site 651182003707 catalytic site [active] 651182003708 putative DNA binding site [nucleotide binding]; other site 651182003709 metal binding site [ion binding]; metal-binding site 651182003710 UvrB/uvrC motif; Region: UVR; pfam02151 651182003711 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 651182003712 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 651182003713 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 651182003714 RNA binding site [nucleotide binding]; other site 651182003715 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 651182003716 RNA binding site [nucleotide binding]; other site 651182003717 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 651182003718 RNA binding site [nucleotide binding]; other site 651182003719 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 651182003720 RNA binding site [nucleotide binding]; other site 651182003721 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; cd00164 651182003722 RNA binding site [nucleotide binding]; other site 651182003723 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 651182003724 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 651182003725 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 651182003726 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 651182003727 active site 651182003728 motif I; other site 651182003729 motif II; other site 651182003730 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 651182003731 Response regulator receiver domain; Region: Response_reg; pfam00072 651182003732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003733 active site 651182003734 phosphorylation site [posttranslational modification] 651182003735 intermolecular recognition site; other site 651182003736 dimerization interface [polypeptide binding]; other site 651182003737 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182003738 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 651182003739 dimer interface [polypeptide binding]; other site 651182003740 phosphorylation site [posttranslational modification] 651182003741 Response regulator receiver domain; Region: Response_reg; pfam00072 651182003742 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003743 active site 651182003744 phosphorylation site [posttranslational modification] 651182003745 intermolecular recognition site; other site 651182003746 dimerization interface [polypeptide binding]; other site 651182003747 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182003748 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 651182003749 dimer interface [polypeptide binding]; other site 651182003750 phosphorylation site [posttranslational modification] 651182003751 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 651182003752 ATP binding site [chemical binding]; other site 651182003753 Mg2+ binding site [ion binding]; other site 651182003754 G-X-G motif; other site 651182003755 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 651182003756 Response regulator receiver domain; Region: Response_reg; pfam00072 651182003757 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003758 active site 651182003759 phosphorylation site [posttranslational modification] 651182003760 intermolecular recognition site; other site 651182003761 dimerization interface [polypeptide binding]; other site 651182003762 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 651182003763 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 651182003764 Sulfate transporter family; Region: Sulfate_transp; pfam00916 651182003765 Sulfate transporter family; Region: Sulfate_transp; pfam00916 651182003766 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 651182003767 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 651182003768 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 651182003769 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182003770 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 651182003771 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 651182003772 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182003773 PAS domain; Region: PAS_9; pfam13426 651182003774 putative active site [active] 651182003775 heme pocket [chemical binding]; other site 651182003776 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 651182003777 Response regulator receiver domain; Region: Response_reg; pfam00072 651182003778 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003779 active site 651182003780 phosphorylation site [posttranslational modification] 651182003781 intermolecular recognition site; other site 651182003782 dimerization interface [polypeptide binding]; other site 651182003783 PAS domain S-box; Region: sensory_box; TIGR00229 651182003784 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182003785 putative active site [active] 651182003786 heme pocket [chemical binding]; other site 651182003787 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 651182003788 active site 651182003789 hydrophilic channel; other site 651182003790 dimerization interface [polypeptide binding]; other site 651182003791 catalytic residues [active] 651182003792 active site lid [active] 651182003793 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 651182003794 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 651182003795 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 651182003796 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182003797 Zn2+ binding site [ion binding]; other site 651182003798 Mg2+ binding site [ion binding]; other site 651182003799 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 651182003800 PhoH-like protein; Region: PhoH; pfam02562 651182003801 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 651182003802 Colicin V production protein; Region: Colicin_V; pfam02674 651182003803 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 651182003804 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 651182003805 homodimer interface [polypeptide binding]; other site 651182003806 metal binding site [ion binding]; metal-binding site 651182003807 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 651182003808 homodimer interface [polypeptide binding]; other site 651182003809 active site 651182003810 putative chemical substrate binding site [chemical binding]; other site 651182003811 metal binding site [ion binding]; metal-binding site 651182003812 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 651182003813 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 651182003814 active site 651182003815 zinc binding site [ion binding]; other site 651182003816 Na+ binding site [ion binding]; other site 651182003817 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 651182003818 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182003819 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 651182003820 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182003821 Cysteine-rich domain; Region: CCG; pfam02754 651182003822 Cysteine-rich domain; Region: CCG; pfam02754 651182003823 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 651182003824 Ligand binding site [chemical binding]; other site 651182003825 Electron transfer flavoprotein domain; Region: ETF; pfam01012 651182003826 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 651182003827 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 651182003828 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 651182003829 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 651182003830 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 651182003831 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 651182003832 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182003833 4Fe-4S binding domain; Region: Fer4; pfam00037 651182003834 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182003835 FAD binding domain; Region: FAD_binding_4; pfam01565 651182003836 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 651182003837 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 651182003838 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 651182003839 catalytic loop [active] 651182003840 iron binding site [ion binding]; other site 651182003841 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 651182003842 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 651182003843 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 651182003844 substrate binding pocket [chemical binding]; other site 651182003845 membrane-bound complex binding site; other site 651182003846 hinge residues; other site 651182003847 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 651182003848 dimer interface [polypeptide binding]; other site 651182003849 phosphorylation site [posttranslational modification] 651182003850 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 651182003851 ATP binding site [chemical binding]; other site 651182003852 Mg2+ binding site [ion binding]; other site 651182003853 G-X-G motif; other site 651182003854 Response regulator receiver domain; Region: Response_reg; pfam00072 651182003855 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003856 active site 651182003857 phosphorylation site [posttranslational modification] 651182003858 intermolecular recognition site; other site 651182003859 dimerization interface [polypeptide binding]; other site 651182003860 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182003861 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003862 active site 651182003863 phosphorylation site [posttranslational modification] 651182003864 intermolecular recognition site; other site 651182003865 dimerization interface [polypeptide binding]; other site 651182003866 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182003867 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182003868 metal binding site [ion binding]; metal-binding site 651182003869 active site 651182003870 I-site; other site 651182003871 glutamate formiminotransferase; Region: FtcD; TIGR02024 651182003872 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 651182003873 Formiminotransferase domain; Region: FTCD; pfam02971 651182003874 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 651182003875 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 651182003876 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 651182003877 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 651182003878 active site 651182003879 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 651182003880 DUF35 OB-fold domain; Region: DUF35; pfam01796 651182003881 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional; Region: PRK12820 651182003882 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 651182003883 dimer interface [polypeptide binding]; other site 651182003884 anticodon binding site; other site 651182003885 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 651182003886 motif 1; other site 651182003887 dimer interface [polypeptide binding]; other site 651182003888 active site 651182003889 motif 2; other site 651182003890 GAD domain; Region: GAD; pfam02938 651182003891 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 651182003892 active site 651182003893 motif 3; other site 651182003894 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 651182003895 Amidase; Region: Amidase; cl11426 651182003896 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 651182003897 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 651182003898 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 651182003899 GatB domain; Region: GatB_Yqey; smart00845 651182003900 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 651182003901 diiron binding motif [ion binding]; other site 651182003902 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 651182003903 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 651182003904 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 651182003905 dimerization interface [polypeptide binding]; other site 651182003906 putative tRNAtyr binding site [nucleotide binding]; other site 651182003907 putative active site [active] 651182003908 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 651182003909 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 651182003910 active site 651182003911 dimer interface [polypeptide binding]; other site 651182003912 Protein of unknown function, DUF606; Region: DUF606; pfam04657 651182003913 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 651182003914 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 651182003915 dimerization interface [polypeptide binding]; other site 651182003916 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182003917 putative active site [active] 651182003918 heme pocket [chemical binding]; other site 651182003919 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 651182003920 dimer interface [polypeptide binding]; other site 651182003921 phosphorylation site [posttranslational modification] 651182003922 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 651182003923 ATP binding site [chemical binding]; other site 651182003924 Mg2+ binding site [ion binding]; other site 651182003925 G-X-G motif; other site 651182003926 Response regulator receiver domain; Region: Response_reg; pfam00072 651182003927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182003928 active site 651182003929 phosphorylation site [posttranslational modification] 651182003930 intermolecular recognition site; other site 651182003931 dimerization interface [polypeptide binding]; other site 651182003932 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 651182003933 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 651182003934 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 651182003935 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182003936 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 651182003937 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182003938 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 651182003939 Cysteine-rich domain; Region: CCG; pfam02754 651182003940 Cysteine-rich domain; Region: CCG; pfam02754 651182003941 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182003942 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 651182003943 4Fe-4S binding domain; Region: Fer4; pfam00037 651182003944 4Fe-4S binding domain; Region: Fer4; pfam00037 651182003945 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182003946 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182003947 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182003948 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 651182003949 4Fe-4S binding domain; Region: Fer4; pfam00037 651182003950 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 651182003951 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182003952 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182003953 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 651182003954 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182003955 4Fe-4S binding domain; Region: Fer4; pfam00037 651182003956 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182003957 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182003958 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 651182003959 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 651182003960 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 651182003961 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 651182003962 molybdopterin cofactor binding site; other site 651182003963 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 651182003964 molybdopterin cofactor binding site; other site 651182003965 Nuclease-related domain; Region: NERD; pfam08378 651182003966 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 651182003967 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 651182003968 Family description; Region: UvrD_C_2; pfam13538 651182003969 DEAD-like helicases superfamily; Region: DEXDc; smart00487 651182003970 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 651182003971 Family description; Region: UvrD_C_2; pfam13538 651182003972 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 651182003973 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 651182003974 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 651182003975 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 651182003976 ATP-binding site [chemical binding]; other site 651182003977 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 651182003978 Trm112p-like protein; Region: Trm112p; pfam03966 651182003979 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 651182003980 S-adenosylmethionine binding site [chemical binding]; other site 651182003981 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 651182003982 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 651182003983 putative [Fe4-S4] binding site [ion binding]; other site 651182003984 putative molybdopterin cofactor binding site [chemical binding]; other site 651182003985 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 651182003986 molybdopterin cofactor binding site; other site 651182003987 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 651182003988 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 651182003989 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 651182003990 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 651182003991 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 651182003992 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182003993 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 651182003994 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 651182003995 substrate binding pocket [chemical binding]; other site 651182003996 dimer interface [polypeptide binding]; other site 651182003997 inhibitor binding site; inhibition site 651182003998 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 651182003999 Putative Fe-S cluster; Region: FeS; pfam04060 651182004000 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 651182004001 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 651182004002 ACS interaction site; other site 651182004003 CODH interaction site; other site 651182004004 metal cluster binding site [ion binding]; other site 651182004005 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 651182004006 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 651182004007 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 651182004008 ACS interaction site; other site 651182004009 CODH interaction site; other site 651182004010 metal cluster binding site [ion binding]; other site 651182004011 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 651182004012 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]; Region: MIS1; COG2759 651182004013 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 651182004014 Potassium binding sites [ion binding]; other site 651182004015 Cesium cation binding sites [ion binding]; other site 651182004016 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 651182004017 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 651182004018 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 651182004019 homodimer interface [polypeptide binding]; other site 651182004020 NADP binding site [chemical binding]; other site 651182004021 substrate binding site [chemical binding]; other site 651182004022 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 651182004023 Sensory domain found in PocR; Region: PocR; pfam10114 651182004024 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 651182004025 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182004026 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 651182004027 dimer interface [polypeptide binding]; other site 651182004028 phosphorylation site [posttranslational modification] 651182004029 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 651182004030 ATP binding site [chemical binding]; other site 651182004031 Mg2+ binding site [ion binding]; other site 651182004032 G-X-G motif; other site 651182004033 Response regulator receiver domain; Region: Response_reg; pfam00072 651182004034 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182004035 active site 651182004036 phosphorylation site [posttranslational modification] 651182004037 intermolecular recognition site; other site 651182004038 dimerization interface [polypeptide binding]; other site 651182004039 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182004040 PAS domain; Region: PAS_9; pfam13426 651182004041 putative active site [active] 651182004042 heme pocket [chemical binding]; other site 651182004043 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 651182004044 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 651182004045 Walker A motif; other site 651182004046 ATP binding site [chemical binding]; other site 651182004047 Walker B motif; other site 651182004048 arginine finger; other site 651182004049 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 651182004050 DNA-binding interface [nucleotide binding]; DNA binding site 651182004051 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182004052 dimer interface [polypeptide binding]; other site 651182004053 putative CheW interface [polypeptide binding]; other site 651182004054 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 651182004055 CoA binding domain; Region: CoA_binding_2; pfam13380 651182004056 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 651182004057 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 651182004058 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 651182004059 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 651182004060 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 651182004061 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 651182004062 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 651182004063 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 651182004064 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 651182004065 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 651182004066 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 651182004067 active site 651182004068 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 651182004069 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 651182004070 5S rRNA interface [nucleotide binding]; other site 651182004071 CTC domain interface [polypeptide binding]; other site 651182004072 L16 interface [polypeptide binding]; other site 651182004073 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 651182004074 putative active site [active] 651182004075 catalytic residue [active] 651182004076 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 651182004077 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 651182004078 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 651182004079 RNA binding surface [nucleotide binding]; other site 651182004080 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 651182004081 active site 651182004082 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 651182004083 molybdopterin cofactor binding site; other site 651182004084 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 651182004085 molybdopterin cofactor binding site; other site 651182004086 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 651182004087 catalytic loop [active] 651182004088 iron binding site [ion binding]; other site 651182004089 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 651182004090 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 651182004091 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182004092 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 651182004093 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 651182004094 Putative Fe-S cluster; Region: FeS; cl17515 651182004095 4Fe-4S binding domain; Region: Fer4; pfam00037 651182004096 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 651182004097 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182004098 Response regulator receiver domain; Region: Response_reg; pfam00072 651182004099 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182004100 active site 651182004101 phosphorylation site [posttranslational modification] 651182004102 intermolecular recognition site; other site 651182004103 dimerization interface [polypeptide binding]; other site 651182004104 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182004105 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182004106 putative active site [active] 651182004107 heme pocket [chemical binding]; other site 651182004108 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 651182004109 dimer interface [polypeptide binding]; other site 651182004110 phosphorylation site [posttranslational modification] 651182004111 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 651182004112 ATP binding site [chemical binding]; other site 651182004113 Mg2+ binding site [ion binding]; other site 651182004114 G-X-G motif; other site 651182004115 Response regulator receiver domain; Region: Response_reg; pfam00072 651182004116 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182004117 active site 651182004118 phosphorylation site [posttranslational modification] 651182004119 intermolecular recognition site; other site 651182004120 dimerization interface [polypeptide binding]; other site 651182004121 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 651182004122 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 651182004123 DHHA2 domain; Region: DHHA2; pfam02833 651182004124 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 651182004125 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 651182004126 FeS/SAM binding site; other site 651182004127 cell division protein FtsZ; Validated; Region: PRK09330 651182004128 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 651182004129 nucleotide binding site [chemical binding]; other site 651182004130 SulA interaction site; other site 651182004131 cell division protein FtsA; Region: ftsA; TIGR01174 651182004132 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 651182004133 nucleotide binding site [chemical binding]; other site 651182004134 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 651182004135 Cell division protein FtsA; Region: FtsA; pfam14450 651182004136 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 651182004137 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 651182004138 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 651182004139 FAD binding domain; Region: FAD_binding_4; pfam01565 651182004140 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 651182004141 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 651182004142 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 651182004143 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 651182004144 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 651182004145 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 651182004146 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 651182004147 active site 651182004148 homodimer interface [polypeptide binding]; other site 651182004149 cell division protein FtsW; Region: ftsW; TIGR02614 651182004150 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 651182004151 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 651182004152 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 651182004153 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 651182004154 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 651182004155 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 651182004156 Mg++ binding site [ion binding]; other site 651182004157 putative catalytic motif [active] 651182004158 putative substrate binding site [chemical binding]; other site 651182004159 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 651182004160 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 651182004161 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 651182004162 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 651182004163 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 651182004164 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 651182004165 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 651182004166 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 651182004167 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 651182004168 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 651182004169 MraW methylase family; Region: Methyltransf_5; cl17771 651182004170 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 651182004171 cell division protein MraZ; Reviewed; Region: PRK00326 651182004172 MraZ protein; Region: MraZ; pfam02381 651182004173 MraZ protein; Region: MraZ; pfam02381 651182004174 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 651182004175 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 651182004176 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 651182004177 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 651182004178 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 651182004179 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 651182004180 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 651182004181 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 651182004182 Walker A/P-loop; other site 651182004183 ATP binding site [chemical binding]; other site 651182004184 Q-loop/lid; other site 651182004185 ABC transporter signature motif; other site 651182004186 Walker B; other site 651182004187 D-loop; other site 651182004188 H-loop/switch region; other site 651182004189 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 651182004190 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 651182004191 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 651182004192 Walker A/P-loop; other site 651182004193 ATP binding site [chemical binding]; other site 651182004194 Q-loop/lid; other site 651182004195 ABC transporter signature motif; other site 651182004196 Walker B; other site 651182004197 D-loop; other site 651182004198 H-loop/switch region; other site 651182004199 BioY family; Region: BioY; pfam02632 651182004200 Biotin operon repressor [Transcription]; Region: BirA; COG1654 651182004201 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 651182004202 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 651182004203 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 651182004204 PAS fold; Region: PAS; pfam00989 651182004205 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182004206 putative active site [active] 651182004207 heme pocket [chemical binding]; other site 651182004208 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 651182004209 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 651182004210 Walker A motif; other site 651182004211 ATP binding site [chemical binding]; other site 651182004212 Walker B motif; other site 651182004213 arginine finger; other site 651182004214 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182004215 BCCT family transporter; Region: BCCT; pfam02028 651182004216 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 651182004217 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 651182004218 BCCT family transporter; Region: BCCT; pfam02028 651182004219 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 651182004220 ATP-grasp domain; Region: ATP-grasp_4; cl17255 651182004221 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 651182004222 UDP-glucose 4-epimerase; Region: PLN02240 651182004223 NAD binding site [chemical binding]; other site 651182004224 homodimer interface [polypeptide binding]; other site 651182004225 active site 651182004226 substrate binding site [chemical binding]; other site 651182004227 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 651182004228 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 651182004229 RNase_H superfamily; Region: RNase_H_2; pfam13482 651182004230 active site 651182004231 substrate binding site [chemical binding]; other site 651182004232 Thiamine pyrophosphokinase; Region: TPK; cd07995 651182004233 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 651182004234 active site 651182004235 dimerization interface [polypeptide binding]; other site 651182004236 thiamine binding site [chemical binding]; other site 651182004237 Predicted permeases [General function prediction only]; Region: COG0795 651182004238 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 651182004239 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 651182004240 Predicted permeases [General function prediction only]; Region: COG0795 651182004241 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 651182004242 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 651182004243 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 651182004244 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 651182004245 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 651182004246 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 651182004247 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 651182004248 putative acyl-acceptor binding pocket; other site 651182004249 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 651182004250 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 651182004251 putative active site [active] 651182004252 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 651182004253 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 651182004254 putative active site [active] 651182004255 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 651182004256 O-Antigen ligase; Region: Wzy_C; pfam04932 651182004257 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182004258 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 651182004259 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 651182004260 active site 651182004261 ATP binding site [chemical binding]; other site 651182004262 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182004263 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 651182004264 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 651182004265 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 651182004266 Ligand binding site; other site 651182004267 oligomer interface; other site 651182004268 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 651182004269 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 651182004270 active site 651182004271 NAD binding site [chemical binding]; other site 651182004272 metal binding site [ion binding]; metal-binding site 651182004273 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 651182004274 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 651182004275 inhibitor-cofactor binding pocket; inhibition site 651182004276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182004277 catalytic residue [active] 651182004278 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 651182004279 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 651182004280 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 651182004281 Substrate binding site; other site 651182004282 metal-binding site 651182004283 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182004284 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 651182004285 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 651182004286 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 651182004287 FeS/SAM binding site; other site 651182004288 HemN C-terminal domain; Region: HemN_C; pfam06969 651182004289 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 651182004290 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 651182004291 G1 box; other site 651182004292 putative GEF interaction site [polypeptide binding]; other site 651182004293 GTP/Mg2+ binding site [chemical binding]; other site 651182004294 Switch I region; other site 651182004295 G2 box; other site 651182004296 G3 box; other site 651182004297 Switch II region; other site 651182004298 G4 box; other site 651182004299 G5 box; other site 651182004300 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 651182004301 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 651182004302 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 651182004303 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 651182004304 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 651182004305 DNA binding site [nucleotide binding] 651182004306 Int/Topo IB signature motif; other site 651182004307 active site 651182004308 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 651182004309 active site 651182004310 catalytic residues [active] 651182004311 DNA binding site [nucleotide binding] 651182004312 Int/Topo IB signature motif; other site 651182004313 CHC2 zinc finger; Region: zf-CHC2; cl17510 651182004314 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 651182004315 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 651182004316 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 651182004317 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 651182004318 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 651182004319 non-specific DNA binding site [nucleotide binding]; other site 651182004320 sequence-specific DNA binding site [nucleotide binding]; other site 651182004321 salt bridge; other site 651182004322 Helix-turn-helix domain; Region: HTH_37; pfam13744 651182004323 Fic family protein [Function unknown]; Region: COG3177 651182004324 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 651182004325 Fic/DOC family; Region: Fic; pfam02661 651182004326 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 651182004327 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 651182004328 catalytic residues [active] 651182004329 catalytic nucleophile [active] 651182004330 Presynaptic Site I dimer interface [polypeptide binding]; other site 651182004331 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 651182004332 Synaptic Flat tetramer interface [polypeptide binding]; other site 651182004333 Synaptic Site I dimer interface [polypeptide binding]; other site 651182004334 DNA binding site [nucleotide binding] 651182004335 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 651182004336 DNA-binding interface [nucleotide binding]; DNA binding site 651182004337 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 651182004338 Walker B motif; other site 651182004339 arginine finger; other site 651182004340 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 651182004341 non-specific DNA binding site [nucleotide binding]; other site 651182004342 salt bridge; other site 651182004343 sequence-specific DNA binding site [nucleotide binding]; other site 651182004344 HipA N-terminal domain; Region: Couple_hipA; pfam13657 651182004345 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 651182004346 HipA-like N-terminal domain; Region: HipA_N; pfam07805 651182004347 HipA-like C-terminal domain; Region: HipA_C; pfam07804 651182004348 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 651182004349 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 651182004350 inner membrane protein; Provisional; Region: PRK11715 651182004351 Tetratricopeptide repeat; Region: TPR_12; pfam13424 651182004352 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 651182004353 binding surface 651182004354 TPR motif; other site 651182004355 Tetratricopeptide repeat; Region: TPR_12; pfam13424 651182004356 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 651182004357 binding surface 651182004358 TPR motif; other site 651182004359 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 651182004360 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 651182004361 S-adenosylmethionine binding site [chemical binding]; other site 651182004362 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 651182004363 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 651182004364 Walker A motif; other site 651182004365 ATP binding site [chemical binding]; other site 651182004366 Walker B motif; other site 651182004367 arginine finger; other site 651182004368 Domain of unknown function DUF59; Region: DUF59; cl00941 651182004369 Family description; Region: DsbD_2; pfam13386 651182004370 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 651182004371 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 651182004372 reductive dehalogenase; Region: RDH; TIGR02486 651182004373 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 651182004374 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 651182004375 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182004376 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 651182004377 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 651182004378 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 651182004379 SurA N-terminal domain; Region: SurA_N_3; cl07813 651182004380 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 651182004381 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 651182004382 Peptidase family U32; Region: Peptidase_U32; pfam01136 651182004383 Collagenase; Region: DUF3656; pfam12392 651182004384 elongation factor P; Provisional; Region: PRK04542 651182004385 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 651182004386 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 651182004387 RNA binding site [nucleotide binding]; other site 651182004388 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 651182004389 RNA binding site [nucleotide binding]; other site 651182004390 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 651182004391 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 651182004392 substrate binding site [chemical binding]; other site 651182004393 multimerization interface [polypeptide binding]; other site 651182004394 ATP binding site [chemical binding]; other site 651182004395 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 651182004396 dimer interface [polypeptide binding]; other site 651182004397 substrate binding site [chemical binding]; other site 651182004398 ATP binding site [chemical binding]; other site 651182004399 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 651182004400 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 651182004401 active site 651182004402 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 651182004403 hypothetical protein; Provisional; Region: PRK09256 651182004404 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 651182004405 Methyltransferase domain; Region: Methyltransf_31; pfam13847 651182004406 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 651182004407 S-adenosylmethionine binding site [chemical binding]; other site 651182004408 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 651182004409 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 651182004410 TPP-binding site [chemical binding]; other site 651182004411 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 651182004412 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 651182004413 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 651182004414 dimer interface [polypeptide binding]; other site 651182004415 PYR/PP interface [polypeptide binding]; other site 651182004416 TPP binding site [chemical binding]; other site 651182004417 substrate binding site [chemical binding]; other site 651182004418 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 651182004419 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 651182004420 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 651182004421 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 651182004422 substrate binding pocket [chemical binding]; other site 651182004423 membrane-bound complex binding site; other site 651182004424 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 651182004425 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 651182004426 dimer interface [polypeptide binding]; other site 651182004427 conserved gate region; other site 651182004428 putative PBP binding loops; other site 651182004429 ABC-ATPase subunit interface; other site 651182004430 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 651182004431 ATP-binding cassette domain similar to the molybdate transporter; Region: ABC_ModC_like; cd03299 651182004432 Walker A/P-loop; other site 651182004433 ATP binding site [chemical binding]; other site 651182004434 Q-loop/lid; other site 651182004435 ABC transporter signature motif; other site 651182004436 Walker B; other site 651182004437 D-loop; other site 651182004438 H-loop/switch region; other site 651182004439 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182004440 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182004441 active site 651182004442 phosphorylation site [posttranslational modification] 651182004443 intermolecular recognition site; other site 651182004444 dimerization interface [polypeptide binding]; other site 651182004445 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 651182004446 Walker A motif; other site 651182004447 ATP binding site [chemical binding]; other site 651182004448 Walker B motif; other site 651182004449 arginine finger; other site 651182004450 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182004451 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 651182004452 lipoyl attachment site [posttranslational modification]; other site 651182004453 glycine cleavage system protein H; Provisional; Region: PRK13380 651182004454 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 651182004455 lipoyl attachment site [posttranslational modification]; other site 651182004456 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182004457 PAS domain; Region: PAS_9; pfam13426 651182004458 putative active site [active] 651182004459 heme pocket [chemical binding]; other site 651182004460 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 651182004461 dimer interface [polypeptide binding]; other site 651182004462 phosphorylation site [posttranslational modification] 651182004463 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 651182004464 ATP binding site [chemical binding]; other site 651182004465 Mg2+ binding site [ion binding]; other site 651182004466 G-X-G motif; other site 651182004467 glucosamine:fructose-6-phosphate aminotransferase; Region: PLN02981 651182004468 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 651182004469 active site 651182004470 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 651182004471 dimer interface [polypeptide binding]; other site 651182004472 active site 651182004473 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 651182004474 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 651182004475 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 651182004476 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 651182004477 active site 651182004478 HIGH motif; other site 651182004479 KMSKS motif; other site 651182004480 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 651182004481 tRNA binding surface [nucleotide binding]; other site 651182004482 anticodon binding site; other site 651182004483 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 651182004484 dimer interface [polypeptide binding]; other site 651182004485 putative tRNA-binding site [nucleotide binding]; other site 651182004486 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 651182004487 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 651182004488 DNA polymerase III subunit delta'; Validated; Region: PRK05564 651182004489 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 651182004490 IHF dimer interface [polypeptide binding]; other site 651182004491 IHF - DNA interface [nucleotide binding]; other site 651182004492 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; Region: NGN_SP_TaA; cd09893 651182004493 transcriptional activator RfaH; Region: RfaH; TIGR01955 651182004494 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 651182004495 heterodimer interface [polypeptide binding]; other site 651182004496 homodimer interface [polypeptide binding]; other site 651182004497 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 651182004498 Organic solvent tolerance protein; Region: OstA_C; pfam04453 651182004499 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 651182004500 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 651182004501 dimer interface [polypeptide binding]; other site 651182004502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182004503 catalytic residue [active] 651182004504 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 651182004505 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 651182004506 active site 651182004507 HIGH motif; other site 651182004508 nucleotide binding site [chemical binding]; other site 651182004509 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 651182004510 KMSKS motif; other site 651182004511 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 651182004512 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 651182004513 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 651182004514 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 651182004515 Walker A motif; other site 651182004516 ATP binding site [chemical binding]; other site 651182004517 Walker B motif; other site 651182004518 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 651182004519 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182004520 Zn2+ binding site [ion binding]; other site 651182004521 Mg2+ binding site [ion binding]; other site 651182004522 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 651182004523 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182004524 active site 651182004525 phosphorylation site [posttranslational modification] 651182004526 intermolecular recognition site; other site 651182004527 dimerization interface [polypeptide binding]; other site 651182004528 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182004529 Zn2+ binding site [ion binding]; other site 651182004530 Mg2+ binding site [ion binding]; other site 651182004531 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 651182004532 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 651182004533 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 651182004534 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 651182004535 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 651182004536 ligand binding site [chemical binding]; other site 651182004537 Flagellin N-methylase; Region: FliB; pfam03692 651182004538 recombination protein RecR; Reviewed; Region: recR; PRK00076 651182004539 RecR protein; Region: RecR; pfam02132 651182004540 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 651182004541 putative active site [active] 651182004542 putative metal-binding site [ion binding]; other site 651182004543 tetramer interface [polypeptide binding]; other site 651182004544 hypothetical protein; Validated; Region: PRK00153 651182004545 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 651182004546 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 651182004547 Walker A motif; other site 651182004548 ATP binding site [chemical binding]; other site 651182004549 Walker B motif; other site 651182004550 arginine finger; other site 651182004551 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 651182004552 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 651182004553 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 651182004554 S-adenosylmethionine binding site [chemical binding]; other site 651182004555 Protein of unknown function (DUF721); Region: DUF721; pfam05258 651182004556 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 651182004557 HflK protein; Region: hflK; TIGR01933 651182004558 HflC protein; Region: hflC; TIGR01932 651182004559 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 651182004560 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 651182004561 oligomerisation interface [polypeptide binding]; other site 651182004562 mobile loop; other site 651182004563 roof hairpin; other site 651182004564 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 651182004565 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 651182004566 ring oligomerisation interface [polypeptide binding]; other site 651182004567 ATP/Mg binding site [chemical binding]; other site 651182004568 stacking interactions; other site 651182004569 hinge regions; other site 651182004570 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 651182004571 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 651182004572 TolR protein; Region: tolR; TIGR02801 651182004573 TonB C terminal; Region: TonB_2; pfam13103 651182004574 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 651182004575 TolB amino-terminal domain; Region: TolB_N; pfam04052 651182004576 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 651182004577 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 651182004578 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 651182004579 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 651182004580 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 651182004581 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 651182004582 ligand binding site [chemical binding]; other site 651182004583 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 651182004584 Tetratricopeptide repeat; Region: TPR_6; pfam13174 651182004585 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 651182004586 active site 651182004587 putative DNA-binding cleft [nucleotide binding]; other site 651182004588 dimer interface [polypeptide binding]; other site 651182004589 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 651182004590 RuvA N terminal domain; Region: RuvA_N; pfam01330 651182004591 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 651182004592 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 651182004593 Walker A motif; other site 651182004594 ATP binding site [chemical binding]; other site 651182004595 Walker B motif; other site 651182004596 arginine finger; other site 651182004597 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 651182004598 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 651182004599 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 651182004600 23S rRNA interface [nucleotide binding]; other site 651182004601 L3 interface [polypeptide binding]; other site 651182004602 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 651182004603 exonuclease I; Provisional; Region: sbcB; PRK11779 651182004604 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 651182004605 active site 651182004606 catalytic site [active] 651182004607 substrate binding site [chemical binding]; other site 651182004608 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 651182004609 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 651182004610 IHF dimer interface [polypeptide binding]; other site 651182004611 IHF - DNA interface [nucleotide binding]; other site 651182004612 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 651182004613 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 651182004614 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 651182004615 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 651182004616 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 651182004617 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 651182004618 Found in ATP-dependent protease La (LON); Region: LON; smart00464 651182004619 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 651182004620 Walker A motif; other site 651182004621 ATP binding site [chemical binding]; other site 651182004622 Walker B motif; other site 651182004623 arginine finger; other site 651182004624 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 651182004625 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 651182004626 Glycoprotease family; Region: Peptidase_M22; pfam00814 651182004627 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 651182004628 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 651182004629 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 651182004630 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 651182004631 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 651182004632 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 651182004633 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 651182004634 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 651182004635 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 651182004636 Ligand Binding Site [chemical binding]; other site 651182004637 putative GTP cyclohydrolase; Provisional; Region: PRK13674 651182004638 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 651182004639 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 651182004640 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 651182004641 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 651182004642 oligomer interface [polypeptide binding]; other site 651182004643 putative active site [active] 651182004644 metal binding site [ion binding]; metal-binding site 651182004645 LPP20 lipoprotein; Region: LPP20; cl15824 651182004646 flagellar motor protein MotD; Reviewed; Region: PRK09038 651182004647 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 651182004648 ligand binding site [chemical binding]; other site 651182004649 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 651182004650 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 651182004651 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 651182004652 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 651182004653 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 651182004654 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 651182004655 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 651182004656 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 651182004657 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 651182004658 Competence protein A; Region: Competence_A; pfam11104 651182004659 GspL periplasmic domain; Region: GspL_C; cl14909 651182004660 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 651182004661 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 651182004662 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 651182004663 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 651182004664 type II secretion system protein D; Region: type_II_gspD; TIGR02517 651182004665 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 651182004666 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 651182004667 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 651182004668 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 651182004669 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 651182004670 type II secretion system protein E; Region: type_II_gspE; TIGR02533 651182004671 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 651182004672 Walker A motif; other site 651182004673 ATP binding site [chemical binding]; other site 651182004674 Walker B motif; other site 651182004675 Haemolytic domain; Region: Haemolytic; pfam01809 651182004676 Tetratricopeptide repeat; Region: TPR_16; pfam13432 651182004677 type II secretion system protein F; Region: GspF; TIGR02120 651182004678 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 651182004679 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 651182004680 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 651182004681 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 651182004682 HAMP domain; Region: HAMP; pfam00672 651182004683 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 651182004684 dimer interface [polypeptide binding]; other site 651182004685 phosphorylation site [posttranslational modification] 651182004686 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 651182004687 ATP binding site [chemical binding]; other site 651182004688 Mg2+ binding site [ion binding]; other site 651182004689 G-X-G motif; other site 651182004690 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182004691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182004692 active site 651182004693 phosphorylation site [posttranslational modification] 651182004694 intermolecular recognition site; other site 651182004695 dimerization interface [polypeptide binding]; other site 651182004696 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 651182004697 Walker A motif; other site 651182004698 ATP binding site [chemical binding]; other site 651182004699 Walker B motif; other site 651182004700 arginine finger; other site 651182004701 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182004702 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 651182004703 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 651182004704 Outer membrane efflux protein; Region: OEP; pfam02321 651182004705 Outer membrane efflux protein; Region: OEP; pfam02321 651182004706 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 651182004707 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 651182004708 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 651182004709 Walker A/P-loop; other site 651182004710 ATP binding site [chemical binding]; other site 651182004711 Q-loop/lid; other site 651182004712 ABC transporter signature motif; other site 651182004713 Walker B; other site 651182004714 D-loop; other site 651182004715 H-loop/switch region; other site 651182004716 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 651182004717 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 651182004718 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 651182004719 Walker A/P-loop; other site 651182004720 ATP binding site [chemical binding]; other site 651182004721 Q-loop/lid; other site 651182004722 ABC transporter signature motif; other site 651182004723 Walker B; other site 651182004724 D-loop; other site 651182004725 H-loop/switch region; other site 651182004726 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 651182004727 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182004728 Walker A/P-loop; other site 651182004729 ATP binding site [chemical binding]; other site 651182004730 Q-loop/lid; other site 651182004731 ABC transporter signature motif; other site 651182004732 Walker B; other site 651182004733 D-loop; other site 651182004734 H-loop/switch region; other site 651182004735 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 651182004736 HlyD family secretion protein; Region: HlyD_3; pfam13437 651182004737 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182004738 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 651182004739 putative ADP-binding pocket [chemical binding]; other site 651182004740 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 651182004741 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 651182004742 NADP-binding site; other site 651182004743 homotetramer interface [polypeptide binding]; other site 651182004744 substrate binding site [chemical binding]; other site 651182004745 homodimer interface [polypeptide binding]; other site 651182004746 active site 651182004747 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 651182004748 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 651182004749 NADP-binding site; other site 651182004750 homotetramer interface [polypeptide binding]; other site 651182004751 substrate binding site [chemical binding]; other site 651182004752 homodimer interface [polypeptide binding]; other site 651182004753 active site 651182004754 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 651182004755 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 651182004756 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182004757 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 651182004758 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 651182004759 Walker A/P-loop; other site 651182004760 ATP binding site [chemical binding]; other site 651182004761 Q-loop/lid; other site 651182004762 ABC transporter signature motif; other site 651182004763 Walker B; other site 651182004764 D-loop; other site 651182004765 H-loop/switch region; other site 651182004766 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 651182004767 putative carbohydrate binding site [chemical binding]; other site 651182004768 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 651182004769 Methyltransferase domain; Region: Methyltransf_31; pfam13847 651182004770 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 651182004771 S-adenosylmethionine binding site [chemical binding]; other site 651182004772 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 651182004773 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182004774 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 651182004775 Methyltransferase domain; Region: Methyltransf_11; pfam08241 651182004776 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182004777 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 651182004778 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182004779 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 651182004780 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182004781 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 651182004782 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 651182004783 SapC; Region: SapC; pfam07277 651182004784 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 651182004785 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 651182004786 AAA domain; Region: AAA_14; pfam13173 651182004787 Nuclease-related domain; Region: NERD; pfam08378 651182004788 Integrase core domain; Region: rve; pfam00665 651182004789 Integrase core domain; Region: rve_3; pfam13683 651182004790 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 651182004791 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 651182004792 Walker A motif; other site 651182004793 ATP binding site [chemical binding]; other site 651182004794 Walker B motif; other site 651182004795 Integrase core domain; Region: rve; pfam00665 651182004796 Helix-turn-helix domain; Region: HTH_28; pfam13518 651182004797 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 651182004798 active site 651182004799 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 651182004800 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 651182004801 Transposase [DNA replication, recombination, and repair]; Region: COG5421 651182004802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182004803 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 651182004804 NAD(P) binding site [chemical binding]; other site 651182004805 active site 651182004806 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 651182004807 N-acetyl-D-glucosamine binding site [chemical binding]; other site 651182004808 catalytic residue [active] 651182004809 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 651182004810 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 651182004811 GMP synthase; Reviewed; Region: guaA; PRK00074 651182004812 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 651182004813 AMP/PPi binding site [chemical binding]; other site 651182004814 candidate oxyanion hole; other site 651182004815 catalytic triad [active] 651182004816 potential glutamine specificity residues [chemical binding]; other site 651182004817 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 651182004818 ATP Binding subdomain [chemical binding]; other site 651182004819 Ligand Binding sites [chemical binding]; other site 651182004820 Dimerization subdomain; other site 651182004821 elongation factor P; Validated; Region: PRK00529 651182004822 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 651182004823 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 651182004824 RNA binding site [nucleotide binding]; other site 651182004825 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 651182004826 RNA binding site [nucleotide binding]; other site 651182004827 DNA topoisomerase I; Validated; Region: PRK06599 651182004828 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 651182004829 active site 651182004830 interdomain interaction site; other site 651182004831 putative metal-binding site [ion binding]; other site 651182004832 nucleotide binding site [chemical binding]; other site 651182004833 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 651182004834 domain I; other site 651182004835 DNA binding groove [nucleotide binding] 651182004836 phosphate binding site [ion binding]; other site 651182004837 domain II; other site 651182004838 domain III; other site 651182004839 nucleotide binding site [chemical binding]; other site 651182004840 catalytic site [active] 651182004841 domain IV; other site 651182004842 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 651182004843 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 651182004844 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 651182004845 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 651182004846 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 651182004847 DNA protecting protein DprA; Region: dprA; TIGR00732 651182004848 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 651182004849 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 651182004850 binding surface 651182004851 TPR motif; other site 651182004852 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 651182004853 Protein export membrane protein; Region: SecD_SecF; pfam02355 651182004854 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 651182004855 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 651182004856 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 651182004857 Preprotein translocase subunit; Region: YajC; pfam02699 651182004858 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 651182004859 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 651182004860 homodimer interface [polypeptide binding]; other site 651182004861 oligonucleotide binding site [chemical binding]; other site 651182004862 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 651182004863 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 651182004864 substrate binding pocket [chemical binding]; other site 651182004865 membrane-bound complex binding site; other site 651182004866 hinge residues; other site 651182004867 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 651182004868 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 651182004869 N-acetyl-D-glucosamine binding site [chemical binding]; other site 651182004870 catalytic residue [active] 651182004871 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 651182004872 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 651182004873 CAP-like domain; other site 651182004874 active site 651182004875 primary dimer interface [polypeptide binding]; other site 651182004876 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 651182004877 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 651182004878 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 651182004879 Mg2+ binding site [ion binding]; other site 651182004880 G-X-G motif; other site 651182004881 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 651182004882 anchoring element; other site 651182004883 dimer interface [polypeptide binding]; other site 651182004884 ATP binding site [chemical binding]; other site 651182004885 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 651182004886 active site 651182004887 metal binding site [ion binding]; metal-binding site 651182004888 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 651182004889 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 651182004890 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 651182004891 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 651182004892 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 651182004893 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 651182004894 regulatory protein interface [polypeptide binding]; other site 651182004895 active site 651182004896 regulatory phosphorylation site [posttranslational modification]; other site 651182004897 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 651182004898 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 651182004899 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 651182004900 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 651182004901 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 651182004902 SmpB-tmRNA interface; other site 651182004903 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 651182004904 substrate binding pocket [chemical binding]; other site 651182004905 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 651182004906 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182004907 putative active site [active] 651182004908 heme pocket [chemical binding]; other site 651182004909 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 651182004910 dimer interface [polypeptide binding]; other site 651182004911 phosphorylation site [posttranslational modification] 651182004912 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 651182004913 ATP binding site [chemical binding]; other site 651182004914 Mg2+ binding site [ion binding]; other site 651182004915 G-X-G motif; other site 651182004916 Response regulator receiver domain; Region: Response_reg; pfam00072 651182004917 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182004918 active site 651182004919 phosphorylation site [posttranslational modification] 651182004920 intermolecular recognition site; other site 651182004921 dimerization interface [polypeptide binding]; other site 651182004922 DDE superfamily endonuclease; Region: DDE_5; cl17874 651182004923 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 651182004924 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 651182004925 substrate binding pocket [chemical binding]; other site 651182004926 membrane-bound complex binding site; other site 651182004927 hinge residues; other site 651182004928 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 651182004929 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182004930 Zn2+ binding site [ion binding]; other site 651182004931 Mg2+ binding site [ion binding]; other site 651182004932 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 651182004933 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 651182004934 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 651182004935 dimerization interface [polypeptide binding]; other site 651182004936 GAF domain; Region: GAF_2; pfam13185 651182004937 GAF domain; Region: GAF_3; pfam13492 651182004938 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 651182004939 dimer interface [polypeptide binding]; other site 651182004940 phosphorylation site [posttranslational modification] 651182004941 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 651182004942 ATP binding site [chemical binding]; other site 651182004943 Mg2+ binding site [ion binding]; other site 651182004944 G-X-G motif; other site 651182004945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182004946 Response regulator receiver domain; Region: Response_reg; pfam00072 651182004947 active site 651182004948 phosphorylation site [posttranslational modification] 651182004949 intermolecular recognition site; other site 651182004950 dimerization interface [polypeptide binding]; other site 651182004951 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182004952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182004953 active site 651182004954 phosphorylation site [posttranslational modification] 651182004955 intermolecular recognition site; other site 651182004956 dimerization interface [polypeptide binding]; other site 651182004957 Response regulator receiver domain; Region: Response_reg; pfam00072 651182004958 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182004959 active site 651182004960 phosphorylation site [posttranslational modification] 651182004961 intermolecular recognition site; other site 651182004962 dimerization interface [polypeptide binding]; other site 651182004963 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 651182004964 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 651182004965 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 651182004966 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 651182004967 CheB methylesterase; Region: CheB_methylest; pfam01339 651182004968 Response regulator receiver domain; Region: Response_reg; pfam00072 651182004969 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182004970 active site 651182004971 phosphorylation site [posttranslational modification] 651182004972 intermolecular recognition site; other site 651182004973 dimerization interface [polypeptide binding]; other site 651182004974 GAF domain; Region: GAF_3; pfam13492 651182004975 GAF domain; Region: GAF_2; pfam13185 651182004976 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182004977 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182004978 putative active site [active] 651182004979 heme pocket [chemical binding]; other site 651182004980 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 651182004981 dimer interface [polypeptide binding]; other site 651182004982 phosphorylation site [posttranslational modification] 651182004983 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 651182004984 ATP binding site [chemical binding]; other site 651182004985 Mg2+ binding site [ion binding]; other site 651182004986 G-X-G motif; other site 651182004987 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182004988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182004989 active site 651182004990 phosphorylation site [posttranslational modification] 651182004991 intermolecular recognition site; other site 651182004992 dimerization interface [polypeptide binding]; other site 651182004993 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 651182004994 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 651182004995 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 651182004996 substrate binding site [polypeptide binding]; other site 651182004997 Dicarboxylate transport; Region: DctA-YdbH; cl14674 651182004998 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 651182004999 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 651182005000 PAS domain S-box; Region: sensory_box; TIGR00229 651182005001 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182005002 putative active site [active] 651182005003 heme pocket [chemical binding]; other site 651182005004 PAS domain S-box; Region: sensory_box; TIGR00229 651182005005 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182005006 putative active site [active] 651182005007 heme pocket [chemical binding]; other site 651182005008 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 651182005009 dimer interface [polypeptide binding]; other site 651182005010 phosphorylation site [posttranslational modification] 651182005011 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 651182005012 ATP binding site [chemical binding]; other site 651182005013 Mg2+ binding site [ion binding]; other site 651182005014 G-X-G motif; other site 651182005015 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 651182005016 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 651182005017 putative ligand binding site [chemical binding]; other site 651182005018 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 651182005019 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182005020 acyl-activating enzyme (AAE) consensus motif; other site 651182005021 AMP binding site [chemical binding]; other site 651182005022 active site 651182005023 CoA binding site [chemical binding]; other site 651182005024 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 651182005025 cobalt transport protein CbiM; Validated; Region: PRK06265 651182005026 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 651182005027 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 651182005028 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 651182005029 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 651182005030 Walker A/P-loop; other site 651182005031 ATP binding site [chemical binding]; other site 651182005032 Q-loop/lid; other site 651182005033 ABC transporter signature motif; other site 651182005034 Walker B; other site 651182005035 D-loop; other site 651182005036 H-loop/switch region; other site 651182005037 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 651182005038 DHH family; Region: DHH; pfam01368 651182005039 DHHA1 domain; Region: DHHA1; pfam02272 651182005040 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 651182005041 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 651182005042 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 651182005043 FeS/SAM binding site; other site 651182005044 methionine aminopeptidase; Provisional; Region: PRK12318 651182005045 SEC-C motif; Region: SEC-C; pfam02810 651182005046 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 651182005047 active site 651182005048 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 651182005049 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 651182005050 putative acyl-acceptor binding pocket; other site 651182005051 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 651182005052 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182005053 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 651182005054 FeS/SAM binding site; other site 651182005055 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 651182005056 Major Facilitator Superfamily; Region: MFS_1; pfam07690 651182005057 putative substrate translocation pore; other site 651182005058 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 651182005059 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 651182005060 substrate binding site [chemical binding]; other site 651182005061 hexamer interface [polypeptide binding]; other site 651182005062 metal binding site [ion binding]; metal-binding site 651182005063 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 651182005064 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 651182005065 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 651182005066 16S rRNA methyltransferase B; Provisional; Region: PRK14902 651182005067 NusB family; Region: NusB; pfam01029 651182005068 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 651182005069 S-adenosylmethionine binding site [chemical binding]; other site 651182005070 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 651182005071 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 651182005072 putative active site [active] 651182005073 substrate binding site [chemical binding]; other site 651182005074 putative cosubstrate binding site; other site 651182005075 catalytic site [active] 651182005076 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 651182005077 substrate binding site [chemical binding]; other site 651182005078 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 651182005079 active site 651182005080 catalytic residues [active] 651182005081 metal binding site [ion binding]; metal-binding site 651182005082 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 651182005083 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 651182005084 active site 651182005085 Riboflavin kinase; Region: Flavokinase; pfam01687 651182005086 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 651182005087 DNA binding site [nucleotide binding] 651182005088 active site 651182005089 Int/Topo IB signature motif; other site 651182005090 catalytic residues [active] 651182005091 Pirin; Region: Pirin; pfam02678 651182005092 Pirin-related protein [General function prediction only]; Region: COG1741 651182005093 Pirin; Region: Pirin; pfam02678 651182005094 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 651182005095 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 651182005096 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 651182005097 Transposase; Region: DEDD_Tnp_IS110; pfam01548 651182005098 Integrase core domain; Region: rve; pfam00665 651182005099 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 651182005100 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 651182005101 Walker A motif; other site 651182005102 ATP binding site [chemical binding]; other site 651182005103 Walker B motif; other site 651182005104 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 651182005105 DNA-binding site [nucleotide binding]; DNA binding site 651182005106 RNA-binding motif; other site 651182005107 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 651182005108 Transposase; Region: DEDD_Tnp_IS110; pfam01548 651182005109 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 651182005110 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182005111 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182005112 active site 651182005113 phosphorylation site [posttranslational modification] 651182005114 intermolecular recognition site; other site 651182005115 dimerization interface [polypeptide binding]; other site 651182005116 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 651182005117 Walker A motif; other site 651182005118 ATP binding site [chemical binding]; other site 651182005119 Walker B motif; other site 651182005120 arginine finger; other site 651182005121 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182005122 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 651182005123 dimerization interface [polypeptide binding]; other site 651182005124 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182005125 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 651182005126 putative active site [active] 651182005127 heme pocket [chemical binding]; other site 651182005128 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 651182005129 dimer interface [polypeptide binding]; other site 651182005130 phosphorylation site [posttranslational modification] 651182005131 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 651182005132 ATP binding site [chemical binding]; other site 651182005133 Mg2+ binding site [ion binding]; other site 651182005134 G-X-G motif; other site 651182005135 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 651182005136 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 651182005137 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182005138 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 651182005139 dimer interface [polypeptide binding]; other site 651182005140 phosphorylation site [posttranslational modification] 651182005141 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 651182005142 ATP binding site [chemical binding]; other site 651182005143 Mg2+ binding site [ion binding]; other site 651182005144 G-X-G motif; other site 651182005145 aspartate aminotransferase; Provisional; Region: PRK06836 651182005146 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 651182005147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182005148 homodimer interface [polypeptide binding]; other site 651182005149 catalytic residue [active] 651182005150 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 651182005151 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 651182005152 catalytic residue [active] 651182005153 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 651182005154 Cache domain; Region: Cache_1; pfam02743 651182005155 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 651182005156 dimerization interface [polypeptide binding]; other site 651182005157 PAS domain S-box; Region: sensory_box; TIGR00229 651182005158 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182005159 putative active site [active] 651182005160 heme pocket [chemical binding]; other site 651182005161 Histidine kinase; Region: HisKA_3; pfam07730 651182005162 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 651182005163 ATP binding site [chemical binding]; other site 651182005164 Mg2+ binding site [ion binding]; other site 651182005165 G-X-G motif; other site 651182005166 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 651182005167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182005168 active site 651182005169 phosphorylation site [posttranslational modification] 651182005170 intermolecular recognition site; other site 651182005171 dimerization interface [polypeptide binding]; other site 651182005172 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 651182005173 DNA binding residues [nucleotide binding] 651182005174 dimerization interface [polypeptide binding]; other site 651182005175 acyl-CoA synthetase; Validated; Region: PRK08162 651182005176 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 651182005177 acyl-activating enzyme (AAE) consensus motif; other site 651182005178 putative active site [active] 651182005179 AMP binding site [chemical binding]; other site 651182005180 putative CoA binding site [chemical binding]; other site 651182005181 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 651182005182 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 651182005183 active site 651182005184 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 651182005185 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 651182005186 Ligand binding site; other site 651182005187 metal-binding site 651182005188 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 651182005189 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 651182005190 XdhC Rossmann domain; Region: XdhC_C; pfam13478 651182005191 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 651182005192 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 651182005193 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 651182005194 DOMON domain; Region: DOMON; pfam03351 651182005195 DOMON-like domain of copper-dependent monooxygenases and related proteins; Region: DOMON_DOH; cd09631 651182005196 putative ligand binding site [chemical binding]; other site 651182005197 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 651182005198 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 651182005199 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 651182005200 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 651182005201 Subunit I/III interface [polypeptide binding]; other site 651182005202 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 651182005203 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 651182005204 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 651182005205 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 651182005206 UbiA prenyltransferase family; Region: UbiA; pfam01040 651182005207 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182005208 Autotransporter beta-domain; Region: Autotransporter; smart00869 651182005209 Protein of unknown function (DUF2711); Region: DUF2711; pfam10924 651182005210 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 651182005211 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 651182005212 non-specific DNA binding site [nucleotide binding]; other site 651182005213 salt bridge; other site 651182005214 sequence-specific DNA binding site [nucleotide binding]; other site 651182005215 Transposase domain (DUF772); Region: DUF772; pfam05598 651182005216 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 651182005217 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 651182005218 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 651182005219 Coenzyme A binding pocket [chemical binding]; other site 651182005220 Predicted amidohydrolase [General function prediction only]; Region: COG0388 651182005221 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 651182005222 putative active site [active] 651182005223 catalytic triad [active] 651182005224 putative dimer interface [polypeptide binding]; other site 651182005225 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 651182005226 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 651182005227 FeS/SAM binding site; other site 651182005228 MoxR-like ATPases [General function prediction only]; Region: COG0714 651182005229 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 651182005230 Walker A motif; other site 651182005231 ATP binding site [chemical binding]; other site 651182005232 Walker B motif; other site 651182005233 arginine finger; other site 651182005234 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 651182005235 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; cd00198 651182005236 metal ion-dependent adhesion site (MIDAS); other site 651182005237 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 651182005238 metal ion-dependent adhesion site (MIDAS); other site 651182005239 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 651182005240 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 651182005241 metal ion-dependent adhesion site (MIDAS); other site 651182005242 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 651182005243 binding surface 651182005244 TPR motif; other site 651182005245 TPR repeat; Region: TPR_11; pfam13414 651182005246 Oxygen tolerance; Region: BatD; pfam13584 651182005247 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 651182005248 Tetratricopeptide repeat; Region: TPR_16; pfam13432 651182005249 TPR motif; other site 651182005250 Bacterial SH3 domain homologues; Region: SH3b; smart00287 651182005251 DJ-1 family protein; Region: not_thiJ; TIGR01383 651182005252 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 651182005253 conserved cys residue [active] 651182005254 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182005255 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 651182005256 putative active site [active] 651182005257 heme pocket [chemical binding]; other site 651182005258 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 651182005259 dimer interface [polypeptide binding]; other site 651182005260 phosphorylation site [posttranslational modification] 651182005261 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 651182005262 ATP binding site [chemical binding]; other site 651182005263 Mg2+ binding site [ion binding]; other site 651182005264 G-X-G motif; other site 651182005265 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182005266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182005267 active site 651182005268 phosphorylation site [posttranslational modification] 651182005269 intermolecular recognition site; other site 651182005270 dimerization interface [polypeptide binding]; other site 651182005271 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 651182005272 Walker A motif; other site 651182005273 ATP binding site [chemical binding]; other site 651182005274 Walker B motif; other site 651182005275 arginine finger; other site 651182005276 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182005277 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 651182005278 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 651182005279 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 651182005280 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 651182005281 DctM-like transporters; Region: DctM; pfam06808 651182005282 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 651182005283 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 651182005284 Coenzyme A transferase; Region: CoA_trans; cl17247 651182005285 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182005286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182005287 active site 651182005288 phosphorylation site [posttranslational modification] 651182005289 intermolecular recognition site; other site 651182005290 dimerization interface [polypeptide binding]; other site 651182005291 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 651182005292 Walker A motif; other site 651182005293 ATP binding site [chemical binding]; other site 651182005294 Walker B motif; other site 651182005295 arginine finger; other site 651182005296 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182005297 Cache domain; Region: Cache_1; pfam02743 651182005298 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 651182005299 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 651182005300 dimerization interface [polypeptide binding]; other site 651182005301 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182005302 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182005303 putative active site [active] 651182005304 heme pocket [chemical binding]; other site 651182005305 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 651182005306 dimer interface [polypeptide binding]; other site 651182005307 phosphorylation site [posttranslational modification] 651182005308 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 651182005309 ATP binding site [chemical binding]; other site 651182005310 Mg2+ binding site [ion binding]; other site 651182005311 G-X-G motif; other site 651182005312 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 651182005313 Transcriptional regulator [Transcription]; Region: IclR; COG1414 651182005314 Bacterial transcriptional regulator; Region: IclR; pfam01614 651182005315 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 651182005316 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 651182005317 BssC/TutF protein; Region: BssC_TutF; pfam08201 651182005318 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 651182005319 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 651182005320 putative [Fe4-S4] binding site [ion binding]; other site 651182005321 putative molybdopterin cofactor binding site [chemical binding]; other site 651182005322 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 651182005323 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 651182005324 putative molybdopterin cofactor binding site; other site 651182005325 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 651182005326 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 651182005327 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 651182005328 Na binding site [ion binding]; other site 651182005329 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 651182005330 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 651182005331 dimer interface [polypeptide binding]; other site 651182005332 acyl-activating enzyme (AAE) consensus motif; other site 651182005333 putative active site [active] 651182005334 putative AMP binding site [chemical binding]; other site 651182005335 putative CoA binding site [chemical binding]; other site 651182005336 chemical substrate binding site [chemical binding]; other site 651182005337 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 651182005338 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 651182005339 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 651182005340 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_17; cd08503 651182005341 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 651182005342 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 651182005343 Walker A/P-loop; other site 651182005344 ATP binding site [chemical binding]; other site 651182005345 Q-loop/lid; other site 651182005346 ABC transporter signature motif; other site 651182005347 Walker B; other site 651182005348 D-loop; other site 651182005349 H-loop/switch region; other site 651182005350 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 651182005351 Walker A/P-loop; other site 651182005352 ATP binding site [chemical binding]; other site 651182005353 Q-loop/lid; other site 651182005354 ABC transporter signature motif; other site 651182005355 Walker B; other site 651182005356 D-loop; other site 651182005357 H-loop/switch region; other site 651182005358 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 651182005359 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 651182005360 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 651182005361 dimer interface [polypeptide binding]; other site 651182005362 conserved gate region; other site 651182005363 putative PBP binding loops; other site 651182005364 ABC-ATPase subunit interface; other site 651182005365 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 651182005366 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 651182005367 dimer interface [polypeptide binding]; other site 651182005368 conserved gate region; other site 651182005369 ABC-ATPase subunit interface; other site 651182005370 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 651182005371 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; cl15377 651182005372 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 651182005373 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 651182005374 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 651182005375 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 651182005376 MarR family; Region: MarR_2; pfam12802 651182005377 riboflavin kinase; Provisional; Region: PRK14132 651182005378 Domain of unknown function DUF120; Region: CTP-dep_RFKase; pfam01982 651182005379 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 651182005380 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 651182005381 motif II; other site 651182005382 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 651182005383 catalytic core [active] 651182005384 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 651182005385 Ligand binding site; other site 651182005386 metal-binding site 651182005387 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182005388 Zn2+ binding site [ion binding]; other site 651182005389 Mg2+ binding site [ion binding]; other site 651182005390 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 651182005391 putative MPT binding site; other site 651182005392 Ubiquitin-like proteins; Region: UBQ; cl00155 651182005393 charged pocket; other site 651182005394 hydrophobic patch; other site 651182005395 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 651182005396 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 651182005397 ATP binding site [chemical binding]; other site 651182005398 substrate interface [chemical binding]; other site 651182005399 4-hydroxybenzoyl-CoA reductase, alpha subunit; Region: 4hydrxCoA_A; TIGR03194 651182005400 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 651182005401 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 651182005402 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 651182005403 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 651182005404 catalytic loop [active] 651182005405 iron binding site [ion binding]; other site 651182005406 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 651182005407 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 651182005408 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 651182005409 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 651182005410 Transcriptional regulator [Transcription]; Region: IclR; COG1414 651182005411 Bacterial transcriptional regulator; Region: IclR; pfam01614 651182005412 GAF domain; Region: GAF; pfam01590 651182005413 GAF domain; Region: GAF_2; pfam13185 651182005414 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 651182005415 Ligand Binding Site [chemical binding]; other site 651182005416 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 651182005417 extended (e) SDRs; Region: SDR_e; cd08946 651182005418 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 651182005419 NAD(P) binding site [chemical binding]; other site 651182005420 active site 651182005421 substrate binding site [chemical binding]; other site 651182005422 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 651182005423 Ligand Binding Site [chemical binding]; other site 651182005424 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 651182005425 Ligand Binding Site [chemical binding]; other site 651182005426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 651182005427 AAA domain; Region: AAA_33; pfam13671 651182005428 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 651182005429 active site 651182005430 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 651182005431 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 651182005432 active site 651182005433 metal binding site [ion binding]; metal-binding site 651182005434 nudix motif; other site 651182005435 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 651182005436 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 651182005437 active site 651182005438 metal binding site [ion binding]; metal-binding site 651182005439 Transcriptional regulator [Transcription]; Region: LysR; COG0583 651182005440 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 651182005441 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 651182005442 dimerization interface [polypeptide binding]; other site 651182005443 hypothetical protein; Provisional; Region: PRK08296 651182005444 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 651182005445 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 651182005446 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 651182005447 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182005448 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 651182005449 acyl-activating enzyme (AAE) consensus motif; other site 651182005450 AMP binding site [chemical binding]; other site 651182005451 active site 651182005452 CoA binding site [chemical binding]; other site 651182005453 hypothetical protein; Provisional; Region: PRK02399 651182005454 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 651182005455 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182005456 Zn2+ binding site [ion binding]; other site 651182005457 Mg2+ binding site [ion binding]; other site 651182005458 FOG: CBS domain [General function prediction only]; Region: COG0517 651182005459 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 651182005460 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 651182005461 Flavoprotein; Region: Flavoprotein; pfam02441 651182005462 TIGR04076 family protein; Region: TIGR04076 651182005463 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 651182005464 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 651182005465 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 651182005466 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 651182005467 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 651182005468 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 651182005469 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 651182005470 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182005471 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182005472 metal binding site [ion binding]; metal-binding site 651182005473 active site 651182005474 I-site; other site 651182005475 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 651182005476 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 651182005477 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 651182005478 dimerization interface [polypeptide binding]; other site 651182005479 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 651182005480 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 651182005481 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 651182005482 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 651182005483 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 651182005484 GAF domain; Region: GAF; pfam01590 651182005485 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 651182005486 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 651182005487 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 651182005488 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 651182005489 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 651182005490 Walker A/P-loop; other site 651182005491 ATP binding site [chemical binding]; other site 651182005492 Q-loop/lid; other site 651182005493 ABC transporter signature motif; other site 651182005494 Walker B; other site 651182005495 D-loop; other site 651182005496 H-loop/switch region; other site 651182005497 Trm112p-like protein; Region: Trm112p; cl01066 651182005498 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 651182005499 hypothetical protein; Provisional; Region: PRK11820 651182005500 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 651182005501 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 651182005502 hypothetical protein; Provisional; Region: PRK04323 651182005503 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 651182005504 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 651182005505 catalytic site [active] 651182005506 G-X2-G-X-G-K; other site 651182005507 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 651182005508 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 651182005509 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 651182005510 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 651182005511 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 651182005512 active site 651182005513 Homeodomain-like domain; Region: HTH_23; pfam13384 651182005514 Homeodomain-like domain; Region: HTH_32; pfam13565 651182005515 PAS domain; Region: PAS_9; pfam13426 651182005516 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182005517 dimer interface [polypeptide binding]; other site 651182005518 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 651182005519 putative CheW interface [polypeptide binding]; other site 651182005520 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 651182005521 TIGR00268 family protein; Region: TIGR00268 651182005522 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 651182005523 Ligand Binding Site [chemical binding]; other site 651182005524 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 651182005525 active site 651182005526 multimer interface [polypeptide binding]; other site 651182005527 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 651182005528 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 651182005529 CoA-binding site [chemical binding]; other site 651182005530 ATP-binding [chemical binding]; other site 651182005531 transcription termination factor Rho; Provisional; Region: rho; PRK09376 651182005532 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 651182005533 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 651182005534 RNA binding site [nucleotide binding]; other site 651182005535 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 651182005536 multimer interface [polypeptide binding]; other site 651182005537 Walker A motif; other site 651182005538 ATP binding site [chemical binding]; other site 651182005539 Walker B motif; other site 651182005540 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 651182005541 peptide chain release factor 1; Validated; Region: prfA; PRK00591 651182005542 This domain is found in peptide chain release factors; Region: PCRF; smart00937 651182005543 RF-1 domain; Region: RF-1; pfam00472 651182005544 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 651182005545 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 651182005546 S-adenosylmethionine binding site [chemical binding]; other site 651182005547 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 651182005548 rRNA interaction site [nucleotide binding]; other site 651182005549 S8 interaction site; other site 651182005550 putative laminin-1 binding site; other site 651182005551 elongation factor Ts; Reviewed; Region: tsf; PRK12332 651182005552 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 651182005553 Elongation factor TS; Region: EF_TS; pfam00889 651182005554 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 651182005555 putative nucleotide binding site [chemical binding]; other site 651182005556 uridine monophosphate binding site [chemical binding]; other site 651182005557 homohexameric interface [polypeptide binding]; other site 651182005558 ribosome recycling factor; Reviewed; Region: frr; PRK00083 651182005559 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 651182005560 hinge region; other site 651182005561 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 651182005562 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 651182005563 catalytic residue [active] 651182005564 putative FPP diphosphate binding site; other site 651182005565 putative FPP binding hydrophobic cleft; other site 651182005566 dimer interface [polypeptide binding]; other site 651182005567 putative IPP diphosphate binding site; other site 651182005568 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 651182005569 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 651182005570 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 651182005571 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 651182005572 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 651182005573 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 651182005574 RIP metalloprotease RseP; Region: TIGR00054 651182005575 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 651182005576 active site 651182005577 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 651182005578 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 651182005579 putative substrate binding region [chemical binding]; other site 651182005580 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 651182005581 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 651182005582 dimerization interface [polypeptide binding]; other site 651182005583 ATP binding site [chemical binding]; other site 651182005584 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 651182005585 dimerization interface [polypeptide binding]; other site 651182005586 ATP binding site [chemical binding]; other site 651182005587 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 651182005588 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 651182005589 putative active site [active] 651182005590 catalytic triad [active] 651182005591 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 651182005592 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 651182005593 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 651182005594 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 651182005595 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 651182005596 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 651182005597 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 651182005598 Methyltransferase domain; Region: Methyltransf_24; pfam13578 651182005599 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 651182005600 RNA methyltransferase, RsmE family; Region: TIGR00046 651182005601 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 651182005602 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 651182005603 HIGH motif; other site 651182005604 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 651182005605 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 651182005606 active site 651182005607 KMSKS motif; other site 651182005608 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 651182005609 tRNA binding surface [nucleotide binding]; other site 651182005610 anticodon binding site; other site 651182005611 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 651182005612 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 651182005613 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 651182005614 dimerization interface [polypeptide binding]; other site 651182005615 active site 651182005616 Response regulator receiver domain; Region: Response_reg; pfam00072 651182005617 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182005618 active site 651182005619 phosphorylation site [posttranslational modification] 651182005620 intermolecular recognition site; other site 651182005621 dimerization interface [polypeptide binding]; other site 651182005622 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182005623 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182005624 metal binding site [ion binding]; metal-binding site 651182005625 active site 651182005626 I-site; other site 651182005627 GTP-binding protein LepA; Provisional; Region: PRK05433 651182005628 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 651182005629 G1 box; other site 651182005630 putative GEF interaction site [polypeptide binding]; other site 651182005631 GTP/Mg2+ binding site [chemical binding]; other site 651182005632 Switch I region; other site 651182005633 G2 box; other site 651182005634 G3 box; other site 651182005635 Switch II region; other site 651182005636 G4 box; other site 651182005637 G5 box; other site 651182005638 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 651182005639 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 651182005640 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 651182005641 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 651182005642 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 651182005643 substrate binding site [chemical binding]; other site 651182005644 oxyanion hole (OAH) forming residues; other site 651182005645 trimer interface [polypeptide binding]; other site 651182005646 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 651182005647 CoA binding domain; Region: CoA_binding_2; pfam13380 651182005648 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 651182005649 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 651182005650 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 651182005651 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 651182005652 dimer interface [polypeptide binding]; other site 651182005653 Putative zinc-finger; Region: zf-HC2; pfam13490 651182005654 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 651182005655 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 651182005656 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 651182005657 DNA binding residues [nucleotide binding] 651182005658 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 651182005659 Sulfate transporter family; Region: Sulfate_transp; pfam00916 651182005660 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182005661 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182005662 metal binding site [ion binding]; metal-binding site 651182005663 active site 651182005664 I-site; other site 651182005665 2-isopropylmalate synthase; Validated; Region: PRK00915 651182005666 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 651182005667 active site 651182005668 catalytic residues [active] 651182005669 metal binding site [ion binding]; metal-binding site 651182005670 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 651182005671 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 651182005672 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 651182005673 active site 651182005674 catalytic residues [active] 651182005675 metal binding site [ion binding]; metal-binding site 651182005676 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 651182005677 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 651182005678 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 651182005679 putative valine binding site [chemical binding]; other site 651182005680 dimer interface [polypeptide binding]; other site 651182005681 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 651182005682 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 651182005683 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 651182005684 PYR/PP interface [polypeptide binding]; other site 651182005685 dimer interface [polypeptide binding]; other site 651182005686 TPP binding site [chemical binding]; other site 651182005687 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 651182005688 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 651182005689 TPP-binding site [chemical binding]; other site 651182005690 dimer interface [polypeptide binding]; other site 651182005691 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 651182005692 6-phosphogluconate dehydratase; Region: edd; TIGR01196 651182005693 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 651182005694 dimer interface [polypeptide binding]; other site 651182005695 phosphorylation site [posttranslational modification] 651182005696 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 651182005697 ATP binding site [chemical binding]; other site 651182005698 Mg2+ binding site [ion binding]; other site 651182005699 G-X-G motif; other site 651182005700 Response regulator receiver domain; Region: Response_reg; pfam00072 651182005701 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182005702 active site 651182005703 phosphorylation site [posttranslational modification] 651182005704 intermolecular recognition site; other site 651182005705 dimerization interface [polypeptide binding]; other site 651182005706 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 651182005707 putative binding surface; other site 651182005708 active site 651182005709 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 651182005710 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182005711 active site 651182005712 phosphorylation site [posttranslational modification] 651182005713 intermolecular recognition site; other site 651182005714 dimerization interface [polypeptide binding]; other site 651182005715 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 651182005716 TPR motif; other site 651182005717 binding surface 651182005718 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 651182005719 TPR motif; other site 651182005720 binding surface 651182005721 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 651182005722 AIR carboxylase; Region: AIRC; smart01001 651182005723 plasmid segregation protein ParM; Provisional; Region: PRK13917 651182005724 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 651182005725 Mg binding site [ion binding]; other site 651182005726 nucleotide binding site [chemical binding]; other site 651182005727 putative protofilament interface [polypeptide binding]; other site 651182005728 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 651182005729 S-adenosylmethionine binding site [chemical binding]; other site 651182005730 Methyltransferase domain; Region: Methyltransf_23; pfam13489 651182005731 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 651182005732 S-adenosylmethionine binding site [chemical binding]; other site 651182005733 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 651182005734 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 651182005735 DEAD-like helicases superfamily; Region: DEXDc; smart00487 651182005736 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 651182005737 ATP binding site [chemical binding]; other site 651182005738 putative Mg++ binding site [ion binding]; other site 651182005739 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 651182005740 nucleotide binding region [chemical binding]; other site 651182005741 ATP-binding site [chemical binding]; other site 651182005742 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 651182005743 AAA domain; Region: AAA_30; pfam13604 651182005744 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 651182005745 AAA domain; Region: AAA_12; pfam13087 651182005746 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 651182005747 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 651182005748 putative dimer interface [polypeptide binding]; other site 651182005749 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 651182005750 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 651182005751 putative dimer interface [polypeptide binding]; other site 651182005752 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 651182005753 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 651182005754 putative dimer interface [polypeptide binding]; other site 651182005755 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 651182005756 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 651182005757 putative dimer interface [polypeptide binding]; other site 651182005758 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 651182005759 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 651182005760 putative dimer interface [polypeptide binding]; other site 651182005761 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 651182005762 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 651182005763 Walker A motif; other site 651182005764 ATP binding site [chemical binding]; other site 651182005765 Walker B motif; other site 651182005766 arginine finger; other site 651182005767 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 651182005768 Integrase core domain; Region: rve; pfam00665 651182005769 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 651182005770 BON domain; Region: BON; pfam04972 651182005771 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 651182005772 lipoyl attachment site [posttranslational modification]; other site 651182005773 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cd11375 651182005774 active site 651182005775 Zn binding site [ion binding]; other site 651182005776 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182005777 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182005778 active site 651182005779 phosphorylation site [posttranslational modification] 651182005780 intermolecular recognition site; other site 651182005781 dimerization interface [polypeptide binding]; other site 651182005782 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 651182005783 Walker A motif; other site 651182005784 ATP binding site [chemical binding]; other site 651182005785 Walker B motif; other site 651182005786 arginine finger; other site 651182005787 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182005788 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182005789 PAS domain; Region: PAS_9; pfam13426 651182005790 putative active site [active] 651182005791 heme pocket [chemical binding]; other site 651182005792 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182005793 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 651182005794 dimer interface [polypeptide binding]; other site 651182005795 phosphorylation site [posttranslational modification] 651182005796 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 651182005797 ATP binding site [chemical binding]; other site 651182005798 Mg2+ binding site [ion binding]; other site 651182005799 G-X-G motif; other site 651182005800 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 651182005801 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 651182005802 Rhomboid family; Region: Rhomboid; cl11446 651182005803 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 651182005804 Ion channel; Region: Ion_trans_2; pfam07885 651182005805 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 651182005806 TrkA-N domain; Region: TrkA_N; pfam02254 651182005807 TrkA-C domain; Region: TrkA_C; pfam02080 651182005808 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 651182005809 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 651182005810 Dodecin; Region: Dodecin; pfam07311 651182005811 HDOD domain; Region: HDOD; pfam08668 651182005812 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 651182005813 Walker A motif; other site 651182005814 ATP binding site [chemical binding]; other site 651182005815 Walker B motif; other site 651182005816 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 651182005817 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 651182005818 GIY-YIG motif/motif A; other site 651182005819 putative active site [active] 651182005820 putative metal binding site [ion binding]; other site 651182005821 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 651182005822 AAA domain; Region: AAA_30; pfam13604 651182005823 Family description; Region: UvrD_C_2; pfam13538 651182005824 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 651182005825 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 651182005826 trimer interface [polypeptide binding]; other site 651182005827 putative metal binding site [ion binding]; other site 651182005828 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 651182005829 active site 651182005830 trimerization site [polypeptide binding]; other site 651182005831 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 651182005832 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 651182005833 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 651182005834 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 651182005835 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 651182005836 P loop nucleotide binding; other site 651182005837 switch II; other site 651182005838 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182005839 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 651182005840 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 651182005841 switch II; other site 651182005842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182005843 phosphorylation site [posttranslational modification] 651182005844 intermolecular recognition site; other site 651182005845 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 651182005846 active site 651182005847 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 651182005848 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 651182005849 Walker A/P-loop; other site 651182005850 ATP binding site [chemical binding]; other site 651182005851 Q-loop/lid; other site 651182005852 ABC transporter signature motif; other site 651182005853 Walker B; other site 651182005854 D-loop; other site 651182005855 H-loop/switch region; other site 651182005856 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 651182005857 Permease; Region: Permease; pfam02405 651182005858 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 651182005859 mce related protein; Region: MCE; pfam02470 651182005860 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 651182005861 anti sigma factor interaction site; other site 651182005862 regulatory phosphorylation site [posttranslational modification]; other site 651182005863 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 651182005864 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 651182005865 nucleotide binding site/active site [active] 651182005866 HIT family signature motif; other site 651182005867 catalytic residue [active] 651182005868 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182005869 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 651182005870 putative active site [active] 651182005871 heme pocket [chemical binding]; other site 651182005872 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182005873 putative active site [active] 651182005874 heme pocket [chemical binding]; other site 651182005875 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 651182005876 dimer interface [polypeptide binding]; other site 651182005877 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 651182005878 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 651182005879 putative NAD(P) binding site [chemical binding]; other site 651182005880 putative active site [active] 651182005881 Uncharacterized conserved protein [Function unknown]; Region: COG1633 651182005882 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 651182005883 diiron binding motif [ion binding]; other site 651182005884 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 651182005885 CoA binding domain; Region: CoA_binding_2; pfam13380 651182005886 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 651182005887 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 651182005888 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 651182005889 putative catalytic site [active] 651182005890 putative metal binding site [ion binding]; other site 651182005891 putative phosphate binding site [ion binding]; other site 651182005892 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 651182005893 Rubrerythrin [Energy production and conversion]; Region: COG1592 651182005894 iron binding site [ion binding]; other site 651182005895 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 651182005896 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 651182005897 Citrate synthase; Region: Citrate_synt; pfam00285 651182005898 oxalacetate binding site [chemical binding]; other site 651182005899 citrylCoA binding site [chemical binding]; other site 651182005900 coenzyme A binding site [chemical binding]; other site 651182005901 catalytic triad [active] 651182005902 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 651182005903 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 651182005904 catalytic residues [active] 651182005905 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 651182005906 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 651182005907 active site 651182005908 FMN binding site [chemical binding]; other site 651182005909 substrate binding site [chemical binding]; other site 651182005910 putative catalytic residues [active] 651182005911 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 651182005912 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 651182005913 thioredoxin 2; Provisional; Region: PRK10996 651182005914 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 651182005915 catalytic residues [active] 651182005916 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 651182005917 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 651182005918 non-heme iron binding site [ion binding]; other site 651182005919 dimer interface [polypeptide binding]; other site 651182005920 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 651182005921 non-heme iron binding site [ion binding]; other site 651182005922 dimer interface [polypeptide binding]; other site 651182005923 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 651182005924 diiron binding motif [ion binding]; other site 651182005925 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 651182005926 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 651182005927 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 651182005928 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 651182005929 Rubredoxin; Region: Rubredoxin; pfam00301 651182005930 iron binding site [ion binding]; other site 651182005931 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 651182005932 putative hydrophobic ligand binding site [chemical binding]; other site 651182005933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182005934 TIGR01777 family protein; Region: yfcH 651182005935 NAD(P) binding site [chemical binding]; other site 651182005936 active site 651182005937 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 651182005938 DHH family; Region: DHH; pfam01368 651182005939 PAS domain S-box; Region: sensory_box; TIGR00229 651182005940 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182005941 putative active site [active] 651182005942 heme pocket [chemical binding]; other site 651182005943 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 651182005944 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 651182005945 DNA binding residues [nucleotide binding] 651182005946 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 651182005947 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 651182005948 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 651182005949 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182005950 acyl-activating enzyme (AAE) consensus motif; other site 651182005951 AMP binding site [chemical binding]; other site 651182005952 active site 651182005953 CoA binding site [chemical binding]; other site 651182005954 HDOD domain; Region: HDOD; pfam08668 651182005955 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182005956 Zn2+ binding site [ion binding]; other site 651182005957 Mg2+ binding site [ion binding]; other site 651182005958 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 651182005959 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182005960 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182005961 metal binding site [ion binding]; metal-binding site 651182005962 active site 651182005963 I-site; other site 651182005964 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 651182005965 Coenzyme A transferase; Region: CoA_trans; cl17247 651182005966 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 651182005967 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 651182005968 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 651182005969 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 651182005970 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 651182005971 dimer interface [polypeptide binding]; other site 651182005972 PYR/PP interface [polypeptide binding]; other site 651182005973 TPP binding site [chemical binding]; other site 651182005974 substrate binding site [chemical binding]; other site 651182005975 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 651182005976 TPP-binding site; other site 651182005977 4Fe-4S binding domain; Region: Fer4; pfam00037 651182005978 Putative Fe-S cluster; Region: FeS; cl17515 651182005979 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 651182005980 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 651182005981 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 651182005982 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 651182005983 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 651182005984 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 651182005985 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 651182005986 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 651182005987 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 651182005988 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 651182005989 active site residue [active] 651182005990 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 651182005991 active site residue [active] 651182005992 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 651182005993 active site residue [active] 651182005994 PAS domain S-box; Region: sensory_box; TIGR00229 651182005995 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182005996 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 651182005997 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 651182005998 Walker A motif; other site 651182005999 ATP binding site [chemical binding]; other site 651182006000 Walker B motif; other site 651182006001 arginine finger; other site 651182006002 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182006003 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 651182006004 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 651182006005 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 651182006006 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 651182006007 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 651182006008 putative active site [active] 651182006009 putative metal binding residues [ion binding]; other site 651182006010 signature motif; other site 651182006011 putative dimer interface [polypeptide binding]; other site 651182006012 putative phosphate binding site [ion binding]; other site 651182006013 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 651182006014 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 651182006015 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 651182006016 active site 651182006017 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 651182006018 DctM-like transporters; Region: DctM; pfam06808 651182006019 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 651182006020 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 651182006021 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 651182006022 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 651182006023 30S subunit binding site; other site 651182006024 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 651182006025 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 651182006026 active site 651182006027 FMN binding site [chemical binding]; other site 651182006028 substrate binding site [chemical binding]; other site 651182006029 putative catalytic residue [active] 651182006030 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 651182006031 FAD binding site [chemical binding]; other site 651182006032 Cation efflux family; Region: Cation_efflux; pfam01545 651182006033 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 651182006034 Uncharacterized conserved protein [Function unknown]; Region: COG1433 651182006035 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182006036 PAS domain; Region: PAS_9; pfam13426 651182006037 putative active site [active] 651182006038 heme pocket [chemical binding]; other site 651182006039 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 651182006040 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 651182006041 Walker A motif; other site 651182006042 ATP binding site [chemical binding]; other site 651182006043 Walker B motif; other site 651182006044 arginine finger; other site 651182006045 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 651182006046 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 651182006047 Uncharacterized conserved protein [Function unknown]; Region: COG1433 651182006048 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006049 active site 651182006050 phosphorylation site [posttranslational modification] 651182006051 intermolecular recognition site; other site 651182006052 dimerization interface [polypeptide binding]; other site 651182006053 PAS domain S-box; Region: sensory_box; TIGR00229 651182006054 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182006055 putative active site [active] 651182006056 heme pocket [chemical binding]; other site 651182006057 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182006058 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 651182006059 dimer interface [polypeptide binding]; other site 651182006060 phosphorylation site [posttranslational modification] 651182006061 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 651182006062 ATP binding site [chemical binding]; other site 651182006063 Mg2+ binding site [ion binding]; other site 651182006064 G-X-G motif; other site 651182006065 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182006066 4Fe-4S binding domain; Region: Fer4; pfam00037 651182006067 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 651182006068 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182006069 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 651182006070 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182006071 4Fe-4S binding domain; Region: Fer4; pfam00037 651182006072 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182006073 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 651182006074 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182006075 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 651182006076 4Fe-4S binding domain; Region: Fer4; pfam00037 651182006077 Response regulator receiver domain; Region: Response_reg; pfam00072 651182006078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006079 active site 651182006080 phosphorylation site [posttranslational modification] 651182006081 intermolecular recognition site; other site 651182006082 dimerization interface [polypeptide binding]; other site 651182006083 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182006084 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182006085 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 651182006086 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 651182006087 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 651182006088 Cysteine-rich domain; Region: CCG; pfam02754 651182006089 Cysteine-rich domain; Region: CCG; pfam02754 651182006090 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 651182006091 dimerization interface [polypeptide binding]; other site 651182006092 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 651182006093 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182006094 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182006095 putative active site [active] 651182006096 heme pocket [chemical binding]; other site 651182006097 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 651182006098 dimer interface [polypeptide binding]; other site 651182006099 phosphorylation site [posttranslational modification] 651182006100 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 651182006101 ATP binding site [chemical binding]; other site 651182006102 Mg2+ binding site [ion binding]; other site 651182006103 G-X-G motif; other site 651182006104 Response regulator receiver domain; Region: Response_reg; pfam00072 651182006105 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006106 active site 651182006107 phosphorylation site [posttranslational modification] 651182006108 intermolecular recognition site; other site 651182006109 dimerization interface [polypeptide binding]; other site 651182006110 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182006111 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 651182006112 ATP binding site [chemical binding]; other site 651182006113 Mg2+ binding site [ion binding]; other site 651182006114 G-X-G motif; other site 651182006115 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 651182006116 putative binding surface; other site 651182006117 active site 651182006118 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 651182006119 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 651182006120 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 651182006121 ATP binding site [chemical binding]; other site 651182006122 G-X-G motif; other site 651182006123 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 651182006124 CheD chemotactic sensory transduction; Region: CheD; cl00810 651182006125 HDOD domain; Region: HDOD; pfam08668 651182006126 HD domain; Region: HD; pfam01966 651182006127 Response regulator receiver domain; Region: Response_reg; pfam00072 651182006128 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006129 active site 651182006130 phosphorylation site [posttranslational modification] 651182006131 intermolecular recognition site; other site 651182006132 dimerization interface [polypeptide binding]; other site 651182006133 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 651182006134 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 651182006135 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006136 active site 651182006137 phosphorylation site [posttranslational modification] 651182006138 intermolecular recognition site; other site 651182006139 dimerization interface [polypeptide binding]; other site 651182006140 CheB methylesterase; Region: CheB_methylest; pfam01339 651182006141 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 651182006142 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 651182006143 ATP binding site [chemical binding]; other site 651182006144 Mg++ binding site [ion binding]; other site 651182006145 motif III; other site 651182006146 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 651182006147 nucleotide binding region [chemical binding]; other site 651182006148 ATP-binding site [chemical binding]; other site 651182006149 Uncharacterized conserved protein [Function unknown]; Region: COG1633 651182006150 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 651182006151 diiron binding motif [ion binding]; other site 651182006152 hypothetical protein; Validated; Region: PRK00029 651182006153 Uncharacterized conserved protein [Function unknown]; Region: COG0397 651182006154 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 651182006155 Protein of unknown function, DUF399; Region: DUF399; pfam04187 651182006156 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 651182006157 S-adenosylmethionine binding site [chemical binding]; other site 651182006158 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182006159 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 651182006160 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 651182006161 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 651182006162 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 651182006163 Ribosomal protein S21; Region: Ribosomal_S21; pfam01165 651182006164 adenylate kinase; Provisional; Region: PRK14529 651182006165 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 651182006166 AMP-binding site [chemical binding]; other site 651182006167 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 651182006168 hybrid cluster protein; Provisional; Region: PRK05290 651182006169 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 651182006170 ACS interaction site; other site 651182006171 CODH interaction site; other site 651182006172 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 651182006173 ACS interaction site; other site 651182006174 CODH interaction site; other site 651182006175 metal cluster binding site [ion binding]; other site 651182006176 Methyltransferase domain; Region: Methyltransf_23; pfam13489 651182006177 Methyltransferase domain; Region: Methyltransf_11; pfam08241 651182006178 enolase; Provisional; Region: eno; PRK00077 651182006179 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 651182006180 dimer interface [polypeptide binding]; other site 651182006181 metal binding site [ion binding]; metal-binding site 651182006182 substrate binding pocket [chemical binding]; other site 651182006183 CTP synthetase; Validated; Region: pyrG; PRK05380 651182006184 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 651182006185 Catalytic site [active] 651182006186 active site 651182006187 UTP binding site [chemical binding]; other site 651182006188 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 651182006189 active site 651182006190 putative oxyanion hole; other site 651182006191 catalytic triad [active] 651182006192 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 651182006193 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 651182006194 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 651182006195 active sites [active] 651182006196 tetramer interface [polypeptide binding]; other site 651182006197 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 651182006198 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 651182006199 inhibitor-cofactor binding pocket; inhibition site 651182006200 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182006201 catalytic residue [active] 651182006202 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 651182006203 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 651182006204 putative DNA binding site [nucleotide binding]; other site 651182006205 putative Zn2+ binding site [ion binding]; other site 651182006206 AsnC family; Region: AsnC_trans_reg; pfam01037 651182006207 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 651182006208 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 651182006209 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182006210 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 651182006211 acyl-activating enzyme (AAE) consensus motif; other site 651182006212 putative AMP binding site [chemical binding]; other site 651182006213 putative active site [active] 651182006214 acyl-activating enzyme (AAE) consensus motif; other site 651182006215 putative CoA binding site [chemical binding]; other site 651182006216 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 651182006217 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 651182006218 DctM-like transporters; Region: DctM; pfam06808 651182006219 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 651182006220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006221 active site 651182006222 phosphorylation site [posttranslational modification] 651182006223 intermolecular recognition site; other site 651182006224 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 651182006225 DNA methylase; Region: N6_N4_Mtase; pfam01555 651182006226 Predicted amidohydrolase [General function prediction only]; Region: COG0388 651182006227 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 651182006228 putative active site [active] 651182006229 catalytic triad [active] 651182006230 putative dimer interface [polypeptide binding]; other site 651182006231 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 651182006232 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 651182006233 active site 651182006234 nucleotide binding site [chemical binding]; other site 651182006235 HIGH motif; other site 651182006236 KMSKS motif; other site 651182006237 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 651182006238 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 651182006239 Selenophosphate synthase [Amino acid transport and metabolism]; Region: SelD; COG0709 651182006240 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 651182006241 dimerization interface [polypeptide binding]; other site 651182006242 putative ATP binding site [chemical binding]; other site 651182006243 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 651182006244 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 651182006245 ATP synthase subunit C; Region: ATP-synt_C; cl00466 651182006246 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 651182006247 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 651182006248 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 651182006249 P-loop; other site 651182006250 Magnesium ion binding site [ion binding]; other site 651182006251 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 651182006252 Magnesium ion binding site [ion binding]; other site 651182006253 ACT domain-containing protein [General function prediction only]; Region: COG4747 651182006254 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 651182006255 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 651182006256 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182006257 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 651182006258 acyl-activating enzyme (AAE) consensus motif; other site 651182006259 AMP binding site [chemical binding]; other site 651182006260 active site 651182006261 CoA binding site [chemical binding]; other site 651182006262 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 651182006263 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 651182006264 substrate binding site [chemical binding]; other site 651182006265 oxyanion hole (OAH) forming residues; other site 651182006266 trimer interface [polypeptide binding]; other site 651182006267 AMIN domain; Region: AMIN; pfam11741 651182006268 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 651182006269 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 651182006270 active site 651182006271 metal binding site [ion binding]; metal-binding site 651182006272 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 651182006273 MutS domain I; Region: MutS_I; pfam01624 651182006274 MutS domain II; Region: MutS_II; pfam05188 651182006275 MutS domain III; Region: MutS_III; pfam05192 651182006276 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 651182006277 Walker A/P-loop; other site 651182006278 ATP binding site [chemical binding]; other site 651182006279 Q-loop/lid; other site 651182006280 ABC transporter signature motif; other site 651182006281 Walker B; other site 651182006282 D-loop; other site 651182006283 H-loop/switch region; other site 651182006284 Peptidase family M23; Region: Peptidase_M23; pfam01551 651182006285 imidazolonepropionase; Validated; Region: PRK09356 651182006286 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 651182006287 active site 651182006288 urocanate hydratase; Provisional; Region: PRK05414 651182006289 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 651182006290 active sites [active] 651182006291 tetramer interface [polypeptide binding]; other site 651182006292 hypothetical protein; Provisional; Region: PRK04334 651182006293 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 651182006294 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182006295 Zn2+ binding site [ion binding]; other site 651182006296 Mg2+ binding site [ion binding]; other site 651182006297 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 651182006298 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 651182006299 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 651182006300 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 651182006301 binding surface 651182006302 TPR motif; other site 651182006303 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 651182006304 TPR motif; other site 651182006305 TPR repeat; Region: TPR_11; pfam13414 651182006306 binding surface 651182006307 Tetratricopeptide repeat; Region: TPR_12; pfam13424 651182006308 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 651182006309 TPR motif; other site 651182006310 binding surface 651182006311 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 651182006312 binding surface 651182006313 TPR repeat; Region: TPR_11; pfam13414 651182006314 TPR motif; other site 651182006315 TPR repeat; Region: TPR_11; pfam13414 651182006316 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 651182006317 binding surface 651182006318 TPR motif; other site 651182006319 Tetratricopeptide repeat; Region: TPR_12; pfam13424 651182006320 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 651182006321 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 651182006322 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 651182006323 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 651182006324 DNA binding residues [nucleotide binding] 651182006325 Protein of unknown function (DUF2711); Region: DUF2711; pfam10924 651182006326 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182006327 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182006328 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182006329 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182006330 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182006331 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182006332 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182006333 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 651182006334 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 651182006335 Walker A motif; other site 651182006336 ATP binding site [chemical binding]; other site 651182006337 Walker B motif; other site 651182006338 Integrase core domain; Region: rve; pfam00665 651182006339 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182006340 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 651182006341 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 651182006342 non-specific DNA binding site [nucleotide binding]; other site 651182006343 salt bridge; other site 651182006344 sequence-specific DNA binding site [nucleotide binding]; other site 651182006345 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182006346 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182006347 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182006348 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182006349 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182006350 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182006351 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182006352 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07408 651182006353 D5 N terminal like; Region: D5_N; smart00885 651182006354 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 651182006355 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 651182006356 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 651182006357 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 651182006358 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 651182006359 active site 651182006360 catalytic residues [active] 651182006361 DNA binding site [nucleotide binding] 651182006362 Int/Topo IB signature motif; other site 651182006363 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 651182006364 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 651182006365 Coenzyme A binding pocket [chemical binding]; other site 651182006366 Predicted amidohydrolase [General function prediction only]; Region: COG0388 651182006367 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 651182006368 putative active site [active] 651182006369 catalytic triad [active] 651182006370 putative dimer interface [polypeptide binding]; other site 651182006371 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 651182006372 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 651182006373 G1 box; other site 651182006374 putative GEF interaction site [polypeptide binding]; other site 651182006375 GTP/Mg2+ binding site [chemical binding]; other site 651182006376 Switch I region; other site 651182006377 G2 box; other site 651182006378 G3 box; other site 651182006379 Switch II region; other site 651182006380 G4 box; other site 651182006381 G5 box; other site 651182006382 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 651182006383 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 651182006384 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 651182006385 catalytic residue [active] 651182006386 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 651182006387 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 651182006388 ligand binding site [chemical binding]; other site 651182006389 NAD binding site [chemical binding]; other site 651182006390 dimerization interface [polypeptide binding]; other site 651182006391 catalytic site [active] 651182006392 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 651182006393 putative L-serine binding site [chemical binding]; other site 651182006394 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 651182006395 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 651182006396 FAD binding domain; Region: FAD_binding_4; pfam01565 651182006397 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182006398 Cysteine-rich domain; Region: CCG; pfam02754 651182006399 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 651182006400 RNA methyltransferase, RsmE family; Region: TIGR00046 651182006401 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 651182006402 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 651182006403 ligand binding site [chemical binding]; other site 651182006404 flexible hinge region; other site 651182006405 HDOD domain; Region: HDOD; pfam08668 651182006406 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 651182006407 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 651182006408 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 651182006409 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006410 active site 651182006411 phosphorylation site [posttranslational modification] 651182006412 intermolecular recognition site; other site 651182006413 dimerization interface [polypeptide binding]; other site 651182006414 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 651182006415 binding surface 651182006416 TPR motif; other site 651182006417 TPR repeat; Region: TPR_11; pfam13414 651182006418 Tetratricopeptide repeat; Region: TPR_12; pfam13424 651182006419 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 651182006420 binding surface 651182006421 TPR motif; other site 651182006422 TPR repeat; Region: TPR_11; pfam13414 651182006423 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 651182006424 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 651182006425 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 651182006426 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 651182006427 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 651182006428 inhibitor-cofactor binding pocket; inhibition site 651182006429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182006430 catalytic residue [active] 651182006431 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 651182006432 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 651182006433 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 651182006434 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 651182006435 Hemerythrin; Region: Hemerythrin; cd12107 651182006436 Fe binding site [ion binding]; other site 651182006437 ResB-like family; Region: ResB; pfam05140 651182006438 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 651182006439 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 651182006440 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 651182006441 heme-binding residues [chemical binding]; other site 651182006442 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 651182006443 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 651182006444 molybdopterin cofactor binding site; other site 651182006445 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 651182006446 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 651182006447 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 651182006448 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 651182006449 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182006450 Cysteine-rich domain; Region: CCG; pfam02754 651182006451 Predicted metal-binding protein [Function unknown]; Region: COG5561 651182006452 Response regulator receiver domain; Region: Response_reg; pfam00072 651182006453 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006454 active site 651182006455 phosphorylation site [posttranslational modification] 651182006456 intermolecular recognition site; other site 651182006457 dimerization interface [polypeptide binding]; other site 651182006458 GAF domain; Region: GAF_2; pfam13185 651182006459 GAF domain; Region: GAF; pfam01590 651182006460 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 651182006461 dimer interface [polypeptide binding]; other site 651182006462 phosphorylation site [posttranslational modification] 651182006463 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 651182006464 ATP binding site [chemical binding]; other site 651182006465 Mg2+ binding site [ion binding]; other site 651182006466 G-X-G motif; other site 651182006467 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182006468 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006469 active site 651182006470 phosphorylation site [posttranslational modification] 651182006471 intermolecular recognition site; other site 651182006472 dimerization interface [polypeptide binding]; other site 651182006473 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 651182006474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006475 active site 651182006476 phosphorylation site [posttranslational modification] 651182006477 intermolecular recognition site; other site 651182006478 dimerization interface [polypeptide binding]; other site 651182006479 CheB methylesterase; Region: CheB_methylest; pfam01339 651182006480 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 651182006481 putative binding surface; other site 651182006482 active site 651182006483 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 651182006484 ATP binding site [chemical binding]; other site 651182006485 G-X-G motif; other site 651182006486 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 651182006487 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182006488 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006489 active site 651182006490 phosphorylation site [posttranslational modification] 651182006491 intermolecular recognition site; other site 651182006492 dimerization interface [polypeptide binding]; other site 651182006493 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 651182006494 dimerization interface [polypeptide binding]; other site 651182006495 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182006496 dimer interface [polypeptide binding]; other site 651182006497 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 651182006498 putative CheW interface [polypeptide binding]; other site 651182006499 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 651182006500 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 651182006501 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 651182006502 Tetratricopeptide repeat; Region: TPR_16; pfam13432 651182006503 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 651182006504 binding surface 651182006505 TPR motif; other site 651182006506 TPR repeat; Region: TPR_11; pfam13414 651182006507 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 651182006508 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 651182006509 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 651182006510 putative catalytic cysteine [active] 651182006511 gamma-glutamyl kinase; Provisional; Region: PRK05429 651182006512 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 651182006513 nucleotide binding site [chemical binding]; other site 651182006514 homotetrameric interface [polypeptide binding]; other site 651182006515 putative phosphate binding site [ion binding]; other site 651182006516 putative allosteric binding site; other site 651182006517 PUA domain; Region: PUA; pfam01472 651182006518 Response regulator receiver domain; Region: Response_reg; pfam00072 651182006519 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006520 active site 651182006521 phosphorylation site [posttranslational modification] 651182006522 intermolecular recognition site; other site 651182006523 dimerization interface [polypeptide binding]; other site 651182006524 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 651182006525 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182006526 Cysteine-rich domain; Region: CCG; pfam02754 651182006527 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 651182006528 heme-binding residues [chemical binding]; other site 651182006529 Response regulator receiver domain; Region: Response_reg; pfam00072 651182006530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006531 active site 651182006532 phosphorylation site [posttranslational modification] 651182006533 intermolecular recognition site; other site 651182006534 dimerization interface [polypeptide binding]; other site 651182006535 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 651182006536 Ligand Binding Site [chemical binding]; other site 651182006537 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 651182006538 Ligand Binding Site [chemical binding]; other site 651182006539 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 651182006540 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 651182006541 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 651182006542 spermidine synthase; Provisional; Region: PRK00811 651182006543 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 651182006544 S-adenosylmethionine binding site [chemical binding]; other site 651182006545 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 651182006546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 651182006547 Coenzyme A binding pocket [chemical binding]; other site 651182006548 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 651182006549 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 651182006550 Cache domain; Region: Cache_1; pfam02743 651182006551 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 651182006552 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 651182006553 dimerization interface [polypeptide binding]; other site 651182006554 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182006555 putative active site [active] 651182006556 heme pocket [chemical binding]; other site 651182006557 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 651182006558 dimer interface [polypeptide binding]; other site 651182006559 phosphorylation site [posttranslational modification] 651182006560 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 651182006561 ATP binding site [chemical binding]; other site 651182006562 Mg2+ binding site [ion binding]; other site 651182006563 G-X-G motif; other site 651182006564 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182006565 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006566 active site 651182006567 phosphorylation site [posttranslational modification] 651182006568 intermolecular recognition site; other site 651182006569 dimerization interface [polypeptide binding]; other site 651182006570 FOG: CBS domain [General function prediction only]; Region: COG0517 651182006571 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 651182006572 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 651182006573 Ligand Binding Site [chemical binding]; other site 651182006574 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 651182006575 Ligand Binding Site [chemical binding]; other site 651182006576 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 651182006577 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 651182006578 active site 651182006579 FMN binding site [chemical binding]; other site 651182006580 substrate binding site [chemical binding]; other site 651182006581 putative catalytic residue [active] 651182006582 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 651182006583 Ligand Binding Site [chemical binding]; other site 651182006584 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 651182006585 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 651182006586 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 651182006587 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182006588 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 651182006589 dimer interface [polypeptide binding]; other site 651182006590 phosphorylation site [posttranslational modification] 651182006591 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 651182006592 ATP binding site [chemical binding]; other site 651182006593 Mg2+ binding site [ion binding]; other site 651182006594 G-X-G motif; other site 651182006595 Response regulator receiver domain; Region: Response_reg; pfam00072 651182006596 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006597 active site 651182006598 phosphorylation site [posttranslational modification] 651182006599 intermolecular recognition site; other site 651182006600 dimerization interface [polypeptide binding]; other site 651182006601 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 651182006602 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 651182006603 transmembrane helices; other site 651182006604 Response regulator receiver domain; Region: Response_reg; pfam00072 651182006605 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006606 active site 651182006607 phosphorylation site [posttranslational modification] 651182006608 intermolecular recognition site; other site 651182006609 dimerization interface [polypeptide binding]; other site 651182006610 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182006611 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 651182006612 dimer interface [polypeptide binding]; other site 651182006613 phosphorylation site [posttranslational modification] 651182006614 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 651182006615 ATP binding site [chemical binding]; other site 651182006616 Mg2+ binding site [ion binding]; other site 651182006617 G-X-G motif; other site 651182006618 Response regulator receiver domain; Region: Response_reg; pfam00072 651182006619 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006620 active site 651182006621 phosphorylation site [posttranslational modification] 651182006622 intermolecular recognition site; other site 651182006623 dimerization interface [polypeptide binding]; other site 651182006624 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 651182006625 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 651182006626 transmembrane helices; other site 651182006627 Response regulator receiver domain; Region: Response_reg; pfam00072 651182006628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006629 active site 651182006630 phosphorylation site [posttranslational modification] 651182006631 intermolecular recognition site; other site 651182006632 dimerization interface [polypeptide binding]; other site 651182006633 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 651182006634 FOG: CBS domain [General function prediction only]; Region: COG0517 651182006635 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 651182006636 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 651182006637 FOG: CBS domain [General function prediction only]; Region: COG0517 651182006638 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 651182006639 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 651182006640 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 651182006641 Ligand Binding Site [chemical binding]; other site 651182006642 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 651182006643 CoA binding domain; Region: CoA_binding_2; pfam13380 651182006644 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 651182006645 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 651182006646 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 651182006647 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 651182006648 Coenzyme A binding pocket [chemical binding]; other site 651182006649 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 651182006650 dimer interface [polypeptide binding]; other site 651182006651 phosphorylation site [posttranslational modification] 651182006652 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 651182006653 ATP binding site [chemical binding]; other site 651182006654 Mg2+ binding site [ion binding]; other site 651182006655 G-X-G motif; other site 651182006656 Response regulator receiver domain; Region: Response_reg; pfam00072 651182006657 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006658 active site 651182006659 phosphorylation site [posttranslational modification] 651182006660 intermolecular recognition site; other site 651182006661 dimerization interface [polypeptide binding]; other site 651182006662 Response regulator receiver domain; Region: Response_reg; pfam00072 651182006663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006664 active site 651182006665 phosphorylation site [posttranslational modification] 651182006666 intermolecular recognition site; other site 651182006667 dimerization interface [polypeptide binding]; other site 651182006668 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 651182006669 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 651182006670 transmembrane helices; other site 651182006671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006672 active site 651182006673 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182006674 phosphorylation site [posttranslational modification] 651182006675 intermolecular recognition site; other site 651182006676 dimerization interface [polypeptide binding]; other site 651182006677 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 651182006678 dimer interface [polypeptide binding]; other site 651182006679 phosphorylation site [posttranslational modification] 651182006680 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 651182006681 ATP binding site [chemical binding]; other site 651182006682 Mg2+ binding site [ion binding]; other site 651182006683 G-X-G motif; other site 651182006684 Response regulator receiver domain; Region: Response_reg; pfam00072 651182006685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006686 active site 651182006687 phosphorylation site [posttranslational modification] 651182006688 intermolecular recognition site; other site 651182006689 dimerization interface [polypeptide binding]; other site 651182006690 CHASE3 domain; Region: CHASE3; cl05000 651182006691 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 651182006692 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 651182006693 dimer interface [polypeptide binding]; other site 651182006694 phosphorylation site [posttranslational modification] 651182006695 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 651182006696 ATP binding site [chemical binding]; other site 651182006697 Mg2+ binding site [ion binding]; other site 651182006698 G-X-G motif; other site 651182006699 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182006700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182006701 active site 651182006702 phosphorylation site [posttranslational modification] 651182006703 intermolecular recognition site; other site 651182006704 dimerization interface [polypeptide binding]; other site 651182006705 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 651182006706 Walker A motif; other site 651182006707 ATP binding site [chemical binding]; other site 651182006708 Walker B motif; other site 651182006709 arginine finger; other site 651182006710 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182006711 CBS domain; Region: CBS; pfam00571 651182006712 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 651182006713 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 651182006714 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 651182006715 transmembrane helices; other site 651182006716 hydrogenase 4 subunit B; Validated; Region: PRK06521 651182006717 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 651182006718 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 651182006719 NADH dehydrogenase; Region: NADHdh; cl00469 651182006720 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 651182006721 hydrogenase 4 subunit F; Validated; Region: PRK06458 651182006722 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 651182006723 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 651182006724 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 651182006725 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 651182006726 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 651182006727 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 651182006728 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 651182006729 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 651182006730 DNA binding residues [nucleotide binding] 651182006731 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 651182006732 active site 651182006733 phosphorylation site [posttranslational modification] 651182006734 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 651182006735 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 651182006736 Cl- selectivity filter; other site 651182006737 Cl- binding residues [ion binding]; other site 651182006738 pore gating glutamate residue; other site 651182006739 dimer interface [polypeptide binding]; other site 651182006740 FOG: CBS domain [General function prediction only]; Region: COG0517 651182006741 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 651182006742 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 651182006743 Peptidase family U32; Region: Peptidase_U32; pfam01136 651182006744 Peptidase family U32; Region: Peptidase_U32; cl03113 651182006745 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 651182006746 putative trimer interface [polypeptide binding]; other site 651182006747 putative CoA binding site [chemical binding]; other site 651182006748 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 651182006749 dimer interface [polypeptide binding]; other site 651182006750 catalytic triad [active] 651182006751 Beta-lactamase; Region: Beta-lactamase; pfam00144 651182006752 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 651182006753 rod shape-determining protein MreB; Provisional; Region: PRK13927 651182006754 MreB and similar proteins; Region: MreB_like; cd10225 651182006755 nucleotide binding site [chemical binding]; other site 651182006756 Mg binding site [ion binding]; other site 651182006757 putative protofilament interaction site [polypeptide binding]; other site 651182006758 RodZ interaction site [polypeptide binding]; other site 651182006759 rod shape-determining protein MreC; Provisional; Region: PRK13922 651182006760 rod shape-determining protein MreC; Region: MreC; pfam04085 651182006761 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 651182006762 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 651182006763 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 651182006764 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 651182006765 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 651182006766 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 651182006767 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 651182006768 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 651182006769 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 651182006770 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 651182006771 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 651182006772 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 651182006773 beta subunit interaction interface [polypeptide binding]; other site 651182006774 Walker A motif; other site 651182006775 ATP binding site [chemical binding]; other site 651182006776 Walker B motif; other site 651182006777 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 651182006778 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 651182006779 core domain interface [polypeptide binding]; other site 651182006780 delta subunit interface [polypeptide binding]; other site 651182006781 epsilon subunit interface [polypeptide binding]; other site 651182006782 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 651182006783 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 651182006784 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 651182006785 alpha subunit interaction interface [polypeptide binding]; other site 651182006786 Walker A motif; other site 651182006787 ATP binding site [chemical binding]; other site 651182006788 Walker B motif; other site 651182006789 inhibitor binding site; inhibition site 651182006790 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 651182006791 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 651182006792 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 651182006793 gamma subunit interface [polypeptide binding]; other site 651182006794 epsilon subunit interface [polypeptide binding]; other site 651182006795 LBP interface [polypeptide binding]; other site 651182006796 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 651182006797 Substrate binding site; other site 651182006798 Mg++ binding site; other site 651182006799 Cell division protein ZapA; Region: ZapA; pfam05164 651182006800 Domain of unknown function (DUF3552); Region: DUF3552; pfam12072 651182006801 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 651182006802 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182006803 Zn2+ binding site [ion binding]; other site 651182006804 Mg2+ binding site [ion binding]; other site 651182006805 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 651182006806 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 651182006807 active site 651182006808 HIGH motif; other site 651182006809 dimer interface [polypeptide binding]; other site 651182006810 KMSKS motif; other site 651182006811 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 651182006812 RNA binding surface [nucleotide binding]; other site 651182006813 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 651182006814 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 651182006815 generic binding surface II; other site 651182006816 generic binding surface I; other site 651182006817 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 651182006818 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 651182006819 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 651182006820 substrate binding pocket [chemical binding]; other site 651182006821 chain length determination region; other site 651182006822 substrate-Mg2+ binding site; other site 651182006823 catalytic residues [active] 651182006824 aspartate-rich region 1; other site 651182006825 active site lid residues [active] 651182006826 aspartate-rich region 2; other site 651182006827 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 651182006828 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 651182006829 TPP-binding site; other site 651182006830 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 651182006831 PYR/PP interface [polypeptide binding]; other site 651182006832 dimer interface [polypeptide binding]; other site 651182006833 TPP binding site [chemical binding]; other site 651182006834 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 651182006835 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 651182006836 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 651182006837 RNA binding surface [nucleotide binding]; other site 651182006838 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 651182006839 S-adenosylmethionine binding site [chemical binding]; other site 651182006840 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 651182006841 elongation factor G; Reviewed; Region: PRK12740 651182006842 G1 box; other site 651182006843 putative GEF interaction site [polypeptide binding]; other site 651182006844 GTP/Mg2+ binding site [chemical binding]; other site 651182006845 Switch I region; other site 651182006846 G2 box; other site 651182006847 G3 box; other site 651182006848 Switch II region; other site 651182006849 G4 box; other site 651182006850 G5 box; other site 651182006851 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 651182006852 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 651182006853 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 651182006854 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 651182006855 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 651182006856 putative acyl-acceptor binding pocket; other site 651182006857 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 651182006858 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 651182006859 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 651182006860 ParB-like nuclease domain; Region: ParB; smart00470 651182006861 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 651182006862 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 651182006863 ATP binding site [chemical binding]; other site 651182006864 active site 651182006865 substrate binding site [chemical binding]; other site 651182006866 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 651182006867 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 651182006868 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 651182006869 Tetramer interface [polypeptide binding]; other site 651182006870 active site 651182006871 FMN-binding site [chemical binding]; other site 651182006872 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 651182006873 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 651182006874 ADP binding site [chemical binding]; other site 651182006875 magnesium binding site [ion binding]; other site 651182006876 putative shikimate binding site; other site 651182006877 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 651182006878 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 651182006879 hinge; other site 651182006880 active site 651182006881 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 651182006882 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 651182006883 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 651182006884 shikimate binding site; other site 651182006885 NAD(P) binding site [chemical binding]; other site 651182006886 Chorismate mutase type II; Region: CM_2; pfam01817 651182006887 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 651182006888 Prephenate dehydratase; Region: PDT; pfam00800 651182006889 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 651182006890 putative L-Phe binding site [chemical binding]; other site 651182006891 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 651182006892 Domain of unknown function DUF21; Region: DUF21; pfam01595 651182006893 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 651182006894 Transporter associated domain; Region: CorC_HlyC; smart01091 651182006895 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 651182006896 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 651182006897 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 651182006898 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 651182006899 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 651182006900 active site 651182006901 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 651182006902 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 651182006903 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 651182006904 trimer interface [polypeptide binding]; other site 651182006905 active site 651182006906 UDP-GlcNAc binding site [chemical binding]; other site 651182006907 lipid binding site [chemical binding]; lipid-binding site 651182006908 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 651182006909 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 651182006910 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 651182006911 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 651182006912 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 651182006913 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 651182006914 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 651182006915 Surface antigen; Region: Bac_surface_Ag; pfam01103 651182006916 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 651182006917 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 651182006918 Walker A/P-loop; other site 651182006919 ATP binding site [chemical binding]; other site 651182006920 Q-loop/lid; other site 651182006921 ABC transporter signature motif; other site 651182006922 Walker B; other site 651182006923 D-loop; other site 651182006924 H-loop/switch region; other site 651182006925 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 651182006926 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 651182006927 FtsX-like permease family; Region: FtsX; pfam02687 651182006928 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 651182006929 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 651182006930 dimer interface [polypeptide binding]; other site 651182006931 putative anticodon binding site; other site 651182006932 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 651182006933 motif 1; other site 651182006934 active site 651182006935 motif 2; other site 651182006936 motif 3; other site 651182006937 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 651182006938 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 651182006939 dimer interface [polypeptide binding]; other site 651182006940 phosphorylation site [posttranslational modification] 651182006941 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 651182006942 ATP binding site [chemical binding]; other site 651182006943 Mg2+ binding site [ion binding]; other site 651182006944 G-X-G motif; other site 651182006945 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 651182006946 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 651182006947 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 651182006948 DHH family; Region: DHH; pfam01368 651182006949 DHHA1 domain; Region: DHHA1; pfam02272 651182006950 FOG: CBS domain [General function prediction only]; Region: COG0517 651182006951 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 651182006952 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 651182006953 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 651182006954 active site 651182006955 NTP binding site [chemical binding]; other site 651182006956 metal binding triad [ion binding]; metal-binding site 651182006957 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 651182006958 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 651182006959 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 651182006960 active site 651182006961 HIGH motif; other site 651182006962 dimer interface [polypeptide binding]; other site 651182006963 KMSKS motif; other site 651182006964 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 651182006965 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 651182006966 RNA binding surface [nucleotide binding]; other site 651182006967 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 651182006968 active site 651182006969 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 651182006970 heterotetramer interface [polypeptide binding]; other site 651182006971 active site pocket [active] 651182006972 cleavage site 651182006973 integron integrase; Region: integrase_gron; TIGR02249 651182006974 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 651182006975 Int/Topo IB signature motif; other site 651182006976 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 651182006977 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 651182006978 Protein of unknown function (DUF2743); Region: DUF2743; pfam10899 651182006979 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 651182006980 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182006981 putative active site [active] 651182006982 putative NTP binding site [chemical binding]; other site 651182006983 putative nucleic acid binding site [nucleotide binding]; other site 651182006984 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182006985 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 651182006986 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182006987 putative active site [active] 651182006988 putative NTP binding site [chemical binding]; other site 651182006989 putative nucleic acid binding site [nucleotide binding]; other site 651182006990 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182006991 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 651182006992 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 651182006993 HicB family; Region: HicB; pfam05534 651182006994 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 651182006995 Putative transposase; Region: Y2_Tnp; pfam04986 651182006996 integron integrase; Region: integrase_gron; TIGR02249 651182006997 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 651182006998 active site 651182006999 DNA binding site [nucleotide binding] 651182007000 Int/Topo IB signature motif; other site 651182007001 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 651182007002 active site 651182007003 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 651182007004 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 651182007005 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007006 putative active site [active] 651182007007 putative NTP binding site [chemical binding]; other site 651182007008 putative nucleic acid binding site [nucleotide binding]; other site 651182007009 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007010 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 651182007011 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007012 putative active site [active] 651182007013 putative NTP binding site [chemical binding]; other site 651182007014 putative nucleic acid binding site [nucleotide binding]; other site 651182007015 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007016 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 651182007017 Putative transposase; Region: Y2_Tnp; pfam04986 651182007018 integron integrase; Region: integrase_gron; TIGR02249 651182007019 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 651182007020 active site 651182007021 DNA binding site [nucleotide binding] 651182007022 Int/Topo IB signature motif; other site 651182007023 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 651182007024 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007025 putative active site [active] 651182007026 putative NTP binding site [chemical binding]; other site 651182007027 putative nucleic acid binding site [nucleotide binding]; other site 651182007028 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007029 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 651182007030 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007031 putative active site [active] 651182007032 putative NTP binding site [chemical binding]; other site 651182007033 putative nucleic acid binding site [nucleotide binding]; other site 651182007034 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007035 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 651182007036 Putative transposase; Region: Y2_Tnp; pfam04986 651182007037 integron integrase; Region: integrase_gron; TIGR02249 651182007038 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 651182007039 active site 651182007040 DNA binding site [nucleotide binding] 651182007041 Int/Topo IB signature motif; other site 651182007042 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 651182007043 Putative transposase; Region: Y2_Tnp; pfam04986 651182007044 integron integrase; Region: integrase_gron; TIGR02249 651182007045 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 651182007046 active site 651182007047 DNA binding site [nucleotide binding] 651182007048 Int/Topo IB signature motif; other site 651182007049 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 651182007050 HicB family; Region: HicB; pfam05534 651182007051 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 651182007052 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007053 putative active site [active] 651182007054 putative NTP binding site [chemical binding]; other site 651182007055 putative nucleic acid binding site [nucleotide binding]; other site 651182007056 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007057 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 651182007058 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007059 putative active site [active] 651182007060 putative NTP binding site [chemical binding]; other site 651182007061 putative nucleic acid binding site [nucleotide binding]; other site 651182007062 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007063 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 651182007064 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007065 putative active site [active] 651182007066 putative NTP binding site [chemical binding]; other site 651182007067 putative nucleic acid binding site [nucleotide binding]; other site 651182007068 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007069 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 651182007070 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007071 putative active site [active] 651182007072 putative NTP binding site [chemical binding]; other site 651182007073 putative nucleic acid binding site [nucleotide binding]; other site 651182007074 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007075 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 651182007076 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 651182007077 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 651182007078 Putative transposase; Region: Y2_Tnp; pfam04986 651182007079 integron integrase; Region: integrase_gron; TIGR02249 651182007080 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 651182007081 active site 651182007082 DNA binding site [nucleotide binding] 651182007083 Int/Topo IB signature motif; other site 651182007084 YcfA-like protein; Region: YcfA; cl00752 651182007085 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 651182007086 HicB family; Region: HicB; pfam05534 651182007087 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 651182007088 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007089 putative active site [active] 651182007090 putative NTP binding site [chemical binding]; other site 651182007091 putative nucleic acid binding site [nucleotide binding]; other site 651182007092 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007093 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 651182007094 non-specific DNA binding site [nucleotide binding]; other site 651182007095 salt bridge; other site 651182007096 sequence-specific DNA binding site [nucleotide binding]; other site 651182007097 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 651182007098 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 651182007099 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 651182007100 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007101 putative active site [active] 651182007102 putative NTP binding site [chemical binding]; other site 651182007103 putative nucleic acid binding site [nucleotide binding]; other site 651182007104 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007105 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 651182007106 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007107 putative active site [active] 651182007108 putative NTP binding site [chemical binding]; other site 651182007109 putative nucleic acid binding site [nucleotide binding]; other site 651182007110 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007111 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 651182007112 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 651182007113 oligomeric interface; other site 651182007114 putative active site [active] 651182007115 homodimer interface [polypeptide binding]; other site 651182007116 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182007117 Transposase; Region: HTH_Tnp_1; cl17663 651182007118 putative transposase OrfB; Reviewed; Region: PHA02517 651182007119 HTH-like domain; Region: HTH_21; pfam13276 651182007120 Integrase core domain; Region: rve; pfam00665 651182007121 Integrase core domain; Region: rve_3; pfam13683 651182007122 Transposase [DNA replication, recombination, and repair]; Region: COG5421 651182007123 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182007124 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182007125 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182007126 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182007127 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182007128 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182007129 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182007130 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 651182007131 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 651182007132 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 651182007133 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007134 putative active site [active] 651182007135 putative NTP binding site [chemical binding]; other site 651182007136 putative nucleic acid binding site [nucleotide binding]; other site 651182007137 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007138 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182007139 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182007140 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182007141 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 651182007142 Helix-turn-helix domain; Region: HTH_37; pfam13744 651182007143 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 651182007144 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007145 putative active site [active] 651182007146 putative NTP binding site [chemical binding]; other site 651182007147 putative nucleic acid binding site [nucleotide binding]; other site 651182007148 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007149 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182007150 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182007151 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182007152 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182007153 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182007154 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182007155 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182007156 PemK-like protein; Region: PemK; pfam02452 651182007157 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 651182007158 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182007159 putative active site [active] 651182007160 putative NTP binding site [chemical binding]; other site 651182007161 putative nucleic acid binding site [nucleotide binding]; other site 651182007162 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182007163 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 651182007164 Putative transposase; Region: Y2_Tnp; pfam04986 651182007165 integron integrase; Region: integrase_gron; TIGR02249 651182007166 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 651182007167 active site 651182007168 DNA binding site [nucleotide binding] 651182007169 Int/Topo IB signature motif; other site 651182007170 Helix-turn-helix domain; Region: HTH_28; pfam13518 651182007171 Homeodomain-like domain; Region: HTH_32; pfam13565 651182007172 Transposase [DNA replication, recombination, and repair]; Region: COG5421 651182007173 Transposase; Region: DEDD_Tnp_IS110; pfam01548 651182007174 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 651182007175 Transposase; Region: DDE_Tnp_ISL3; pfam01610 651182007176 glycine cleavage system protein H; Provisional; Region: PRK13380 651182007177 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 651182007178 lipoyl attachment site [posttranslational modification]; other site 651182007179 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 651182007180 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 651182007181 tetramer interface [polypeptide binding]; other site 651182007182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182007183 catalytic residue [active] 651182007184 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 651182007185 tetramer interface [polypeptide binding]; other site 651182007186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182007187 catalytic residue [active] 651182007188 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 651182007189 lipoyl synthase; Provisional; Region: PRK05481 651182007190 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 651182007191 FeS/SAM binding site; other site 651182007192 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 651182007193 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 651182007194 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 651182007195 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 651182007196 pyruvate kinase; Provisional; Region: PRK05826 651182007197 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 651182007198 domain interfaces; other site 651182007199 active site 651182007200 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 651182007201 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 651182007202 lipoprotein signal peptidase; Provisional; Region: PRK14787 651182007203 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 651182007204 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 651182007205 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 651182007206 active site 651182007207 HIGH motif; other site 651182007208 nucleotide binding site [chemical binding]; other site 651182007209 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 651182007210 active site 651182007211 KMSKS motif; other site 651182007212 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 651182007213 tRNA binding surface [nucleotide binding]; other site 651182007214 anticodon binding site; other site 651182007215 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 651182007216 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 651182007217 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 651182007218 S-adenosylmethionine binding site [chemical binding]; other site 651182007219 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 651182007220 elongation factor G; Reviewed; Region: PRK12740 651182007221 G1 box; other site 651182007222 putative GEF interaction site [polypeptide binding]; other site 651182007223 GTP/Mg2+ binding site [chemical binding]; other site 651182007224 Switch I region; other site 651182007225 G2 box; other site 651182007226 G3 box; other site 651182007227 Switch II region; other site 651182007228 G4 box; other site 651182007229 G5 box; other site 651182007230 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 651182007231 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 651182007232 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 651182007233 Transposase; Region: DEDD_Tnp_IS110; pfam01548 651182007234 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 651182007235 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 651182007236 Walker A motif; other site 651182007237 ATP binding site [chemical binding]; other site 651182007238 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 651182007239 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 651182007240 putative acyl-acceptor binding pocket; other site 651182007241 Esterase/lipase [General function prediction only]; Region: COG1647 651182007242 NIL domain; Region: NIL; pfam09383 651182007243 4Fe-4S binding domain; Region: Fer4; pfam00037 651182007244 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182007245 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 651182007246 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 651182007247 Ligand Binding Site [chemical binding]; other site 651182007248 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 651182007249 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 651182007250 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 651182007251 FeS/SAM binding site; other site 651182007252 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 651182007253 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 651182007254 putative metal binding site [ion binding]; other site 651182007255 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 651182007256 HSP70 interaction site [polypeptide binding]; other site 651182007257 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 651182007258 BON domain; Region: BON; pfam04972 651182007259 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 651182007260 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 651182007261 active site 651182007262 PHP Thumb interface [polypeptide binding]; other site 651182007263 metal binding site [ion binding]; metal-binding site 651182007264 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 651182007265 generic binding surface II; other site 651182007266 generic binding surface I; other site 651182007267 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 651182007268 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 651182007269 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 651182007270 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 651182007271 active site 651182007272 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 651182007273 G1 box; other site 651182007274 GTP/Mg2+ binding site [chemical binding]; other site 651182007275 G2 box; other site 651182007276 Switch I region; other site 651182007277 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 651182007278 G3 box; other site 651182007279 Switch II region; other site 651182007280 G4 box; other site 651182007281 G5 box; other site 651182007282 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 651182007283 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 651182007284 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 651182007285 Substrate binding site; other site 651182007286 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 651182007287 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 651182007288 dimerization interface [polypeptide binding]; other site 651182007289 putative DNA binding site [nucleotide binding]; other site 651182007290 putative Zn2+ binding site [ion binding]; other site 651182007291 Methyltransferase domain; Region: Methyltransf_31; pfam13847 651182007292 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 651182007293 S-adenosylmethionine binding site [chemical binding]; other site 651182007294 RF-1 domain; Region: RF-1; pfam00472 651182007295 Membrane protein of unknown function; Region: DUF360; pfam04020 651182007296 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 651182007297 active site 1 [active] 651182007298 dimer interface [polypeptide binding]; other site 651182007299 hexamer interface [polypeptide binding]; other site 651182007300 active site 2 [active] 651182007301 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 651182007302 CoenzymeA binding site [chemical binding]; other site 651182007303 subunit interaction site [polypeptide binding]; other site 651182007304 PHB binding site; other site 651182007305 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 651182007306 Flavoprotein; Region: Flavoprotein; pfam02441 651182007307 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 651182007308 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 651182007309 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 651182007310 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 651182007311 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 651182007312 Walker A/P-loop; other site 651182007313 ATP binding site [chemical binding]; other site 651182007314 Q-loop/lid; other site 651182007315 ABC transporter signature motif; other site 651182007316 Walker B; other site 651182007317 D-loop; other site 651182007318 H-loop/switch region; other site 651182007319 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 651182007320 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 651182007321 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 651182007322 putative active site [active] 651182007323 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 651182007324 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 651182007325 active site 651182007326 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 651182007327 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182007328 UDP-galactopyranose mutase; Region: GLF; pfam03275 651182007329 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 651182007330 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 651182007331 Probable Catalytic site; other site 651182007332 metal-binding site 651182007333 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 651182007334 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 651182007335 active site 651182007336 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 651182007337 FeS/SAM binding site; other site 651182007338 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 651182007339 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 651182007340 ligand binding site; other site 651182007341 tetramer interface; other site 651182007342 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 651182007343 active site 651182007344 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 651182007345 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 651182007346 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 651182007347 Walker A/P-loop; other site 651182007348 ATP binding site [chemical binding]; other site 651182007349 Q-loop/lid; other site 651182007350 ABC transporter signature motif; other site 651182007351 Walker B; other site 651182007352 D-loop; other site 651182007353 H-loop/switch region; other site 651182007354 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 651182007355 putative carbohydrate binding site [chemical binding]; other site 651182007356 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 651182007357 ABC-2 type transporter; Region: ABC2_membrane; cl17235 651182007358 Putative cyclase; Region: Cyclase; cl00814 651182007359 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 651182007360 extended (e) SDRs; Region: SDR_e; cd08946 651182007361 NAD(P) binding site [chemical binding]; other site 651182007362 active site 651182007363 substrate binding site [chemical binding]; other site 651182007364 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 651182007365 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 651182007366 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 651182007367 motif II; other site 651182007368 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 651182007369 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 651182007370 putative ligand binding site [chemical binding]; other site 651182007371 putative NAD binding site [chemical binding]; other site 651182007372 catalytic site [active] 651182007373 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 651182007374 Fic/DOC family; Region: Fic; pfam02661 651182007375 AAA domain; Region: AAA_14; pfam13173 651182007376 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 651182007377 Type II transport protein GspH; Region: GspH; pfam12019 651182007378 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 651182007379 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 651182007380 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 651182007381 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 651182007382 PilX N-terminal; Region: PilX_N; pfam14341 651182007383 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 651182007384 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 651182007385 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 651182007386 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 651182007387 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 651182007388 active site 651182007389 substrate binding site [chemical binding]; other site 651182007390 metal binding site [ion binding]; metal-binding site 651182007391 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 651182007392 putative trimer interface [polypeptide binding]; other site 651182007393 putative CoA binding site [chemical binding]; other site 651182007394 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 651182007395 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 651182007396 active site 651182007397 dimer interface [polypeptide binding]; other site 651182007398 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 651182007399 dimer interface [polypeptide binding]; other site 651182007400 active site 651182007401 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 651182007402 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 651182007403 dimer interface [polypeptide binding]; other site 651182007404 active site 651182007405 CoA binding pocket [chemical binding]; other site 651182007406 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 651182007407 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 651182007408 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 651182007409 Response regulator receiver domain; Region: Response_reg; pfam00072 651182007410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182007411 active site 651182007412 phosphorylation site [posttranslational modification] 651182007413 intermolecular recognition site; other site 651182007414 dimerization interface [polypeptide binding]; other site 651182007415 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 651182007416 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 651182007417 Walker A motif; other site 651182007418 ATP binding site [chemical binding]; other site 651182007419 Walker B motif; other site 651182007420 arginine finger; other site 651182007421 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182007422 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 651182007423 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 651182007424 putative ligand binding site [chemical binding]; other site 651182007425 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 651182007426 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 651182007427 TM-ABC transporter signature motif; other site 651182007428 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 651182007429 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 651182007430 TM-ABC transporter signature motif; other site 651182007431 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 651182007432 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 651182007433 Walker A/P-loop; other site 651182007434 ATP binding site [chemical binding]; other site 651182007435 Q-loop/lid; other site 651182007436 ABC transporter signature motif; other site 651182007437 Walker B; other site 651182007438 D-loop; other site 651182007439 H-loop/switch region; other site 651182007440 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 651182007441 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 651182007442 Walker A/P-loop; other site 651182007443 ATP binding site [chemical binding]; other site 651182007444 Q-loop/lid; other site 651182007445 ABC transporter signature motif; other site 651182007446 Walker B; other site 651182007447 D-loop; other site 651182007448 H-loop/switch region; other site 651182007449 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 651182007450 CheW-like domain; Region: CheW; pfam01584 651182007451 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182007452 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182007453 active site 651182007454 phosphorylation site [posttranslational modification] 651182007455 intermolecular recognition site; other site 651182007456 dimerization interface [polypeptide binding]; other site 651182007457 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182007458 PAS domain; Region: PAS_9; pfam13426 651182007459 putative active site [active] 651182007460 heme pocket [chemical binding]; other site 651182007461 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182007462 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 651182007463 Walker A motif; other site 651182007464 ATP binding site [chemical binding]; other site 651182007465 Walker B motif; other site 651182007466 arginine finger; other site 651182007467 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 651182007468 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 651182007469 catalytic residues [active] 651182007470 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 651182007471 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 651182007472 catalytic loop [active] 651182007473 iron binding site [ion binding]; other site 651182007474 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 651182007475 nucleotide binding site [chemical binding]; other site 651182007476 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 651182007477 Sodium Bile acid symporter family; Region: SBF; cl17470 651182007478 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 651182007479 Major Facilitator Superfamily; Region: MFS_1; pfam07690 651182007480 putative substrate translocation pore; other site 651182007481 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182007482 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 651182007483 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 651182007484 dimer interface [polypeptide binding]; other site 651182007485 phosphorylation site [posttranslational modification] 651182007486 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 651182007487 ATP binding site [chemical binding]; other site 651182007488 Mg2+ binding site [ion binding]; other site 651182007489 G-X-G motif; other site 651182007490 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 651182007491 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182007492 active site 651182007493 phosphorylation site [posttranslational modification] 651182007494 intermolecular recognition site; other site 651182007495 dimerization interface [polypeptide binding]; other site 651182007496 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 651182007497 DNA binding site [nucleotide binding] 651182007498 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 651182007499 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 651182007500 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 651182007501 HlyD family secretion protein; Region: HlyD_3; pfam13437 651182007502 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 651182007503 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 651182007504 MltA-interacting protein MipA; Region: MipA; cl01504 651182007505 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 651182007506 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182007507 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182007508 active site 651182007509 phosphorylation site [posttranslational modification] 651182007510 intermolecular recognition site; other site 651182007511 dimerization interface [polypeptide binding]; other site 651182007512 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 651182007513 Walker A motif; other site 651182007514 ATP binding site [chemical binding]; other site 651182007515 Walker B motif; other site 651182007516 arginine finger; other site 651182007517 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182007518 dihydroorotase; Validated; Region: pyrC; PRK09357 651182007519 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 651182007520 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 651182007521 active site 651182007522 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 651182007523 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 651182007524 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 651182007525 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 651182007526 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 651182007527 Catalytic site [active] 651182007528 Domain of unknown function DUF39; Region: DUF39; pfam01837 651182007529 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 651182007530 Peptidase family M23; Region: Peptidase_M23; pfam01551 651182007531 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 651182007532 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 651182007533 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 651182007534 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 651182007535 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 651182007536 OstA-like protein; Region: OstA; cl00844 651182007537 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 651182007538 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 651182007539 Walker A/P-loop; other site 651182007540 ATP binding site [chemical binding]; other site 651182007541 Q-loop/lid; other site 651182007542 ABC transporter signature motif; other site 651182007543 Walker B; other site 651182007544 D-loop; other site 651182007545 H-loop/switch region; other site 651182007546 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 651182007547 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 651182007548 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 651182007549 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 651182007550 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 651182007551 30S subunit binding site; other site 651182007552 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 651182007553 active site 651182007554 phosphorylation site [posttranslational modification] 651182007555 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 651182007556 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 651182007557 active pocket/dimerization site; other site 651182007558 active site 651182007559 phosphorylation site [posttranslational modification] 651182007560 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 651182007561 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 651182007562 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 651182007563 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 651182007564 triosephosphate isomerase; Provisional; Region: PRK14567 651182007565 substrate binding site [chemical binding]; other site 651182007566 dimer interface [polypeptide binding]; other site 651182007567 catalytic triad [active] 651182007568 Preprotein translocase SecG subunit; Region: SecG; pfam03840 651182007569 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 651182007570 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 651182007571 Walker A motif; other site 651182007572 ATP binding site [chemical binding]; other site 651182007573 Walker B motif; other site 651182007574 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 651182007575 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 651182007576 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 651182007577 FeS/SAM binding site; other site 651182007578 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 651182007579 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; cd00384 651182007580 dimer interface [polypeptide binding]; other site 651182007581 active site 651182007582 Schiff base residues; other site 651182007583 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 651182007584 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 651182007585 FeS/SAM binding site; other site 651182007586 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 651182007587 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 651182007588 active site 651182007589 ADP/pyrophosphate binding site [chemical binding]; other site 651182007590 allosteric effector site; other site 651182007591 dimerization interface [polypeptide binding]; other site 651182007592 fructose-1,6-bisphosphate binding site; other site 651182007593 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 651182007594 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182007595 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182007596 metal binding site [ion binding]; metal-binding site 651182007597 active site 651182007598 I-site; other site 651182007599 Sodium Bile acid symporter family; Region: SBF; cl17470 651182007600 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 651182007601 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 651182007602 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182007603 SnoaL-like domain; Region: SnoaL_2; pfam12680 651182007604 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 651182007605 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 651182007606 nucleotide binding pocket [chemical binding]; other site 651182007607 K-X-D-G motif; other site 651182007608 catalytic site [active] 651182007609 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 651182007610 Helix-hairpin-helix motif; Region: HHH; pfam00633 651182007611 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 651182007612 Dimer interface [polypeptide binding]; other site 651182007613 BRCT sequence motif; other site 651182007614 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 651182007615 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 651182007616 DALR anticodon binding domain; Region: DALR_1; pfam05746 651182007617 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 651182007618 dimer interface [polypeptide binding]; other site 651182007619 motif 1; other site 651182007620 active site 651182007621 motif 2; other site 651182007622 motif 3; other site 651182007623 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 651182007624 Recombination protein O N terminal; Region: RecO_N; pfam11967 651182007625 DNA repair protein RecO; Region: reco; TIGR00613 651182007626 Recombination protein O C terminal; Region: RecO_C; pfam02565 651182007627 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 651182007628 MgtE intracellular N domain; Region: MgtE_N; smart00924 651182007629 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 651182007630 Divalent cation transporter; Region: MgtE; pfam01769 651182007631 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 651182007632 SurA N-terminal domain; Region: SurA_N; pfam09312 651182007633 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 651182007634 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 651182007635 active site 651182007636 DNA polymerase IV; Validated; Region: PRK02406 651182007637 DNA binding site [nucleotide binding] 651182007638 Acylphosphatase; Region: Acylphosphatase; cl00551 651182007639 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 651182007640 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 651182007641 ligand binding site [chemical binding]; other site 651182007642 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 651182007643 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 651182007644 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 651182007645 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 651182007646 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 651182007647 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 651182007648 Walker A/P-loop; other site 651182007649 ATP binding site [chemical binding]; other site 651182007650 Q-loop/lid; other site 651182007651 ABC transporter signature motif; other site 651182007652 Walker B; other site 651182007653 D-loop; other site 651182007654 H-loop/switch region; other site 651182007655 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 651182007656 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 651182007657 DNA-binding site [nucleotide binding]; DNA binding site 651182007658 RNA-binding motif; other site 651182007659 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 651182007660 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 651182007661 Walker A/P-loop; other site 651182007662 ATP binding site [chemical binding]; other site 651182007663 Q-loop/lid; other site 651182007664 ABC transporter signature motif; other site 651182007665 Walker B; other site 651182007666 D-loop; other site 651182007667 H-loop/switch region; other site 651182007668 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 651182007669 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 651182007670 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 651182007671 Walker A motif; other site 651182007672 ATP binding site [chemical binding]; other site 651182007673 Walker B motif; other site 651182007674 arginine finger; other site 651182007675 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 651182007676 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 651182007677 ligand binding site [chemical binding]; other site 651182007678 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 651182007679 binding surface 651182007680 TPR repeat; Region: TPR_11; pfam13414 651182007681 TPR motif; other site 651182007682 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 651182007683 binding surface 651182007684 TPR motif; other site 651182007685 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 651182007686 TPR motif; other site 651182007687 binding surface 651182007688 TPR repeat; Region: TPR_11; pfam13414 651182007689 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 651182007690 TPR motif; other site 651182007691 binding surface 651182007692 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 651182007693 TPR repeat; Region: TPR_11; pfam13414 651182007694 binding surface 651182007695 TPR motif; other site 651182007696 Tetratricopeptide repeat; Region: TPR_16; pfam13432 651182007697 TPR repeat; Region: TPR_11; pfam13414 651182007698 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 651182007699 TPR motif; other site 651182007700 binding surface 651182007701 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 651182007702 TPR motif; other site 651182007703 binding surface 651182007704 TPR repeat; Region: TPR_11; pfam13414 651182007705 TPR repeat; Region: TPR_11; pfam13414 651182007706 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 651182007707 TPR motif; other site 651182007708 binding surface 651182007709 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 651182007710 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182007711 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 651182007712 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 651182007713 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 651182007714 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 651182007715 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 651182007716 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 651182007717 TRAM domain; Region: TRAM; cl01282 651182007718 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 651182007719 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 651182007720 S-adenosylmethionine binding site [chemical binding]; other site 651182007721 competence damage-inducible protein A; Provisional; Region: PRK00549 651182007722 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 651182007723 putative MPT binding site; other site 651182007724 Competence-damaged protein; Region: CinA; pfam02464 651182007725 Radical SAM superfamily; Region: Radical_SAM; pfam04055 651182007726 TPR repeat; Region: TPR_11; pfam13414 651182007727 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 651182007728 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 651182007729 ATP binding site [chemical binding]; other site 651182007730 putative Mg++ binding site [ion binding]; other site 651182007731 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 651182007732 nucleotide binding region [chemical binding]; other site 651182007733 ATP-binding site [chemical binding]; other site 651182007734 anthranilate synthase component I; Provisional; Region: PRK13565 651182007735 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 651182007736 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 651182007737 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 651182007738 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 651182007739 glutamine binding [chemical binding]; other site 651182007740 catalytic triad [active] 651182007741 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 651182007742 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 651182007743 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 651182007744 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 651182007745 active site 651182007746 ribulose/triose binding site [chemical binding]; other site 651182007747 phosphate binding site [ion binding]; other site 651182007748 substrate (anthranilate) binding pocket [chemical binding]; other site 651182007749 product (indole) binding pocket [chemical binding]; other site 651182007750 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 651182007751 active site 651182007752 Dodecin; Region: Dodecin; pfam07311 651182007753 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 651182007754 Uncharacterized conserved protein [Function unknown]; Region: COG1262 651182007755 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 651182007756 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 651182007757 active site residue [active] 651182007758 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 651182007759 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 651182007760 Septum formation initiator; Region: DivIC; pfam04977 651182007761 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 651182007762 integral membrane protein MviN; Region: mviN; TIGR01695 651182007763 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 651182007764 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 651182007765 Lipopolysaccharide-assembly; Region: LptE; pfam04390 651182007766 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 651182007767 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 651182007768 HIGH motif; other site 651182007769 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 651182007770 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 651182007771 active site 651182007772 KMSKS motif; other site 651182007773 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 651182007774 tRNA binding surface [nucleotide binding]; other site 651182007775 TPR repeat; Region: TPR_11; pfam13414 651182007776 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 651182007777 binding surface 651182007778 TPR motif; other site 651182007779 TPR repeat; Region: TPR_11; pfam13414 651182007780 Sporulation related domain; Region: SPOR; pfam05036 651182007781 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 651182007782 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 651182007783 TPR repeat; Region: TPR_11; pfam13414 651182007784 binding surface 651182007785 TPR motif; other site 651182007786 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 651182007787 binding surface 651182007788 Tetratricopeptide repeat; Region: TPR_16; pfam13432 651182007789 TPR motif; other site 651182007790 Tetratricopeptide repeat; Region: TPR_12; pfam13424 651182007791 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 651182007792 binding surface 651182007793 TPR motif; other site 651182007794 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 651182007795 TPR repeat; Region: TPR_11; pfam13414 651182007796 binding surface 651182007797 TPR motif; other site 651182007798 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 651182007799 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 651182007800 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 651182007801 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 651182007802 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 651182007803 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 651182007804 ATP binding site [chemical binding]; other site 651182007805 Walker A motif; other site 651182007806 hexamer interface [polypeptide binding]; other site 651182007807 Walker B motif; other site 651182007808 AAA domain; Region: AAA_31; pfam13614 651182007809 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 651182007810 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 651182007811 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 651182007812 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 651182007813 TadE-like protein; Region: TadE; pfam07811 651182007814 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 651182007815 TadE-like protein; Region: TadE; pfam07811 651182007816 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 651182007817 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 651182007818 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 651182007819 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 651182007820 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 651182007821 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 651182007822 Type III pantothenate kinase; Region: Pan_kinase; cl17198 651182007823 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 651182007824 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 651182007825 Walker A motif; other site 651182007826 ATP binding site [chemical binding]; other site 651182007827 Walker B motif; other site 651182007828 arginine finger; other site 651182007829 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 651182007830 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 651182007831 putative ligand binding site [chemical binding]; other site 651182007832 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 651182007833 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 651182007834 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 651182007835 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 651182007836 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 651182007837 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 651182007838 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 651182007839 replicative DNA helicase; Region: DnaB; TIGR00665 651182007840 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 651182007841 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 651182007842 Walker A motif; other site 651182007843 ATP binding site [chemical binding]; other site 651182007844 Walker B motif; other site 651182007845 DNA binding loops [nucleotide binding] 651182007846 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 651182007847 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 651182007848 HflX GTPase family; Region: HflX; cd01878 651182007849 G1 box; other site 651182007850 GTP/Mg2+ binding site [chemical binding]; other site 651182007851 Switch I region; other site 651182007852 G2 box; other site 651182007853 G3 box; other site 651182007854 Switch II region; other site 651182007855 G4 box; other site 651182007856 G5 box; other site 651182007857 FAD binding domain; Region: FAD_binding_4; pfam01565 651182007858 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 651182007859 DnaA N-terminal domain; Region: DnaA_N; pfam11638 651182007860 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 651182007861 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 651182007862 Walker A motif; other site 651182007863 ATP binding site [chemical binding]; other site 651182007864 Walker B motif; other site 651182007865 arginine finger; other site 651182007866 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 651182007867 DnaA box-binding interface [nucleotide binding]; other site 651182007868 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 651182007869 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 651182007870 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 651182007871 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 651182007872 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 651182007873 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 651182007874 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 651182007875 molybdate ABC transporter periplasmic substrate-binding protein; Provisional; Region: PRK04168 651182007876 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 651182007877 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 651182007878 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 651182007879 dimer interface [polypeptide binding]; other site 651182007880 conserved gate region; other site 651182007881 putative PBP binding loops; other site 651182007882 ABC-ATPase subunit interface; other site 651182007883 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 651182007884 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182007885 Walker A/P-loop; other site 651182007886 ATP binding site [chemical binding]; other site 651182007887 Q-loop/lid; other site 651182007888 ABC transporter signature motif; other site 651182007889 Walker B; other site 651182007890 D-loop; other site 651182007891 H-loop/switch region; other site 651182007892 TOBE domain; Region: TOBE_2; pfam08402 651182007893 PEP-CTERM motif; Region: VPEP; pfam07589 651182007894 hypothetical protein; Provisional; Region: PRK14851 651182007895 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 651182007896 ATP binding site [chemical binding]; other site 651182007897 substrate interface [chemical binding]; other site 651182007898 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 651182007899 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 651182007900 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 651182007901 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 651182007902 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 651182007903 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 651182007904 ATP-grasp domain; Region: ATP-grasp_4; cl17255 651182007905 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 651182007906 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 651182007907 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 651182007908 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 651182007909 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 651182007910 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 651182007911 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 651182007912 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 651182007913 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 651182007914 catalytic residue [active] 651182007915 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 651182007916 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 651182007917 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 651182007918 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 651182007919 putative active site [active] 651182007920 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 651182007921 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 651182007922 putative active site [active] 651182007923 putative metal binding site [ion binding]; other site 651182007924 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182007925 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 651182007926 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 651182007927 ATP-grasp domain; Region: ATP-grasp_4; cl17255 651182007928 ATP-grasp domain; Region: ATP-grasp_4; cl17255 651182007929 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 651182007930 Coenzyme A binding pocket [chemical binding]; other site 651182007931 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 651182007932 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 651182007933 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 651182007934 dimer interface [polypeptide binding]; other site 651182007935 active site 651182007936 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 651182007937 catalytic residues [active] 651182007938 substrate binding site [chemical binding]; other site 651182007939 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 651182007940 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182007941 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 651182007942 acyl-activating enzyme (AAE) consensus motif; other site 651182007943 acyl-activating enzyme (AAE) consensus motif; other site 651182007944 putative AMP binding site [chemical binding]; other site 651182007945 putative active site [active] 651182007946 putative CoA binding site [chemical binding]; other site 651182007947 Phosphopantetheine attachment site; Region: PP-binding; cl09936 651182007948 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 651182007949 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 651182007950 putative active site [active] 651182007951 putative metal binding site [ion binding]; other site 651182007952 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 651182007953 active site 651182007954 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 651182007955 Ligand Binding Site [chemical binding]; other site 651182007956 Molecular Tunnel; other site 651182007957 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 651182007958 active site 651182007959 cosubstrate binding site; other site 651182007960 substrate binding site [chemical binding]; other site 651182007961 catalytic site [active] 651182007962 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 651182007963 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 651182007964 DXD motif; other site 651182007965 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182007966 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 651182007967 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 651182007968 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 651182007969 exosortase D, VPLPA-CTERM-specific; Region: exosort_VPLPA; TIGR04152 651182007970 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 651182007971 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 651182007972 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 651182007973 putative active site [active] 651182007974 putative catalytic site [active] 651182007975 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 651182007976 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 651182007977 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 651182007978 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 651182007979 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 651182007980 Bacterial sugar transferase; Region: Bac_transf; pfam02397 651182007981 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 651182007982 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182007983 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 651182007984 Chain length determinant protein; Region: Wzz; cl15801 651182007985 Chain length determinant protein; Region: Wzz; cl15801 651182007986 aminopeptidase N; Provisional; Region: pepN; PRK14015 651182007987 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 651182007988 active site 651182007989 Zn binding site [ion binding]; other site 651182007990 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 651182007991 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 651182007992 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 651182007993 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 651182007994 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 651182007995 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 651182007996 putative NAD(P) binding site [chemical binding]; other site 651182007997 active site 651182007998 putative substrate binding site [chemical binding]; other site 651182007999 cyclase homology domain; Region: CHD; cd07302 651182008000 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 651182008001 nucleotidyl binding site; other site 651182008002 metal binding site [ion binding]; metal-binding site 651182008003 dimer interface [polypeptide binding]; other site 651182008004 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 651182008005 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 651182008006 S-adenosylmethionine binding site [chemical binding]; other site 651182008007 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 651182008008 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 651182008009 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 651182008010 ATP binding site [chemical binding]; other site 651182008011 putative Mg++ binding site [ion binding]; other site 651182008012 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 651182008013 nucleotide binding region [chemical binding]; other site 651182008014 ATP-binding site [chemical binding]; other site 651182008015 TRCF domain; Region: TRCF; pfam03461 651182008016 PrkA AAA domain; Region: AAA_PrkA; smart00763 651182008017 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 651182008018 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 651182008019 hypothetical protein; Provisional; Region: PRK05325 651182008020 PrkA AAA domain; Region: AAA_PrkA; smart00763 651182008021 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 651182008022 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 651182008023 NMT1-like family; Region: NMT1_2; pfam13379 651182008024 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 651182008025 substrate binding site; other site 651182008026 dimer interface; other site 651182008027 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 651182008028 Putative zinc ribbon domain; Region: DUF164; pfam02591 651182008029 Uncharacterized conserved protein [Function unknown]; Region: COG0327 651182008030 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 651182008031 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 651182008032 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 651182008033 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 651182008034 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 651182008035 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 651182008036 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 651182008037 DNA binding residues [nucleotide binding] 651182008038 DNA primase; Validated; Region: dnaG; PRK05667 651182008039 CHC2 zinc finger; Region: zf-CHC2; pfam01807 651182008040 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 651182008041 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 651182008042 active site 651182008043 metal binding site [ion binding]; metal-binding site 651182008044 interdomain interaction site; other site 651182008045 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 651182008046 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 651182008047 putative active site pocket [active] 651182008048 4-fold oligomerization interface [polypeptide binding]; other site 651182008049 metal binding residues [ion binding]; metal-binding site 651182008050 3-fold/trimer interface [polypeptide binding]; other site 651182008051 SprA-related family; Region: SprA-related; pfam12118 651182008052 Isochorismatase family; Region: Isochorismatase; pfam00857 651182008053 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 651182008054 catalytic triad [active] 651182008055 dimer interface [polypeptide binding]; other site 651182008056 conserved cis-peptide bond; other site 651182008057 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 651182008058 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 651182008059 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 651182008060 ATP binding site [chemical binding]; other site 651182008061 Mg++ binding site [ion binding]; other site 651182008062 motif III; other site 651182008063 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 651182008064 nucleotide binding region [chemical binding]; other site 651182008065 ATP-binding site [chemical binding]; other site 651182008066 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 651182008067 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 651182008068 Walker A motif; other site 651182008069 ATP binding site [chemical binding]; other site 651182008070 Walker B motif; other site 651182008071 Integrase core domain; Region: rve; pfam00665 651182008072 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 651182008073 active site 651182008074 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 651182008075 Transposase; Region: DEDD_Tnp_IS110; pfam01548 651182008076 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 651182008077 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 651182008078 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 651182008079 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182008080 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182008081 active site 651182008082 phosphorylation site [posttranslational modification] 651182008083 intermolecular recognition site; other site 651182008084 dimerization interface [polypeptide binding]; other site 651182008085 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 651182008086 Walker A motif; other site 651182008087 ATP binding site [chemical binding]; other site 651182008088 Walker B motif; other site 651182008089 arginine finger; other site 651182008090 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182008091 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 651182008092 dimer interface [polypeptide binding]; other site 651182008093 phosphorylation site [posttranslational modification] 651182008094 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 651182008095 ATP binding site [chemical binding]; other site 651182008096 Mg2+ binding site [ion binding]; other site 651182008097 G-X-G motif; other site 651182008098 glutamate dehydrogenase; Provisional; Region: PRK09414 651182008099 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 651182008100 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 651182008101 NAD(P) binding site [chemical binding]; other site 651182008102 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 651182008103 TrkA-N domain; Region: TrkA_N; pfam02254 651182008104 TrkA-C domain; Region: TrkA_C; pfam02080 651182008105 TrkA-N domain; Region: TrkA_N; pfam02254 651182008106 TrkA-C domain; Region: TrkA_C; pfam02080 651182008107 Cation transport protein; Region: TrkH; cl17365 651182008108 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 651182008109 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 651182008110 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 651182008111 metal ion-dependent adhesion site (MIDAS); other site 651182008112 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182008113 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 651182008114 dimer interface [polypeptide binding]; other site 651182008115 phosphorylation site [posttranslational modification] 651182008116 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 651182008117 ATP binding site [chemical binding]; other site 651182008118 Mg2+ binding site [ion binding]; other site 651182008119 G-X-G motif; other site 651182008120 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 651182008121 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182008122 active site 651182008123 phosphorylation site [posttranslational modification] 651182008124 intermolecular recognition site; other site 651182008125 dimerization interface [polypeptide binding]; other site 651182008126 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 651182008127 DNA binding site [nucleotide binding] 651182008128 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 651182008129 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 651182008130 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182008131 putative active site [active] 651182008132 heme pocket [chemical binding]; other site 651182008133 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 651182008134 dimer interface [polypeptide binding]; other site 651182008135 phosphorylation site [posttranslational modification] 651182008136 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 651182008137 ATP binding site [chemical binding]; other site 651182008138 Mg2+ binding site [ion binding]; other site 651182008139 G-X-G motif; other site 651182008140 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182008141 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182008142 active site 651182008143 phosphorylation site [posttranslational modification] 651182008144 intermolecular recognition site; other site 651182008145 dimerization interface [polypeptide binding]; other site 651182008146 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 651182008147 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 651182008148 ligand binding site [chemical binding]; other site 651182008149 flexible hinge region; other site 651182008150 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 651182008151 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 651182008152 ligand binding site [chemical binding]; other site 651182008153 flexible hinge region; other site 651182008154 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 651182008155 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 651182008156 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 651182008157 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 651182008158 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 651182008159 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 651182008160 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 651182008161 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 651182008162 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 651182008163 Predicted subunit of the Multisubunit Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: COG1563 651182008164 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 651182008165 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 651182008166 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 651182008167 Response regulator receiver domain; Region: Response_reg; pfam00072 651182008168 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182008169 active site 651182008170 phosphorylation site [posttranslational modification] 651182008171 intermolecular recognition site; other site 651182008172 dimerization interface [polypeptide binding]; other site 651182008173 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 651182008174 Ligand Binding Site [chemical binding]; other site 651182008175 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 651182008176 Ligand Binding Site [chemical binding]; other site 651182008177 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182008178 Response regulator receiver domain; Region: Response_reg; pfam00072 651182008179 active site 651182008180 phosphorylation site [posttranslational modification] 651182008181 intermolecular recognition site; other site 651182008182 dimerization interface [polypeptide binding]; other site 651182008183 Response regulator receiver domain; Region: Response_reg; pfam00072 651182008184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182008185 active site 651182008186 phosphorylation site [posttranslational modification] 651182008187 intermolecular recognition site; other site 651182008188 dimerization interface [polypeptide binding]; other site 651182008189 PAS domain S-box; Region: sensory_box; TIGR00229 651182008190 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182008191 putative active site [active] 651182008192 heme pocket [chemical binding]; other site 651182008193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182008194 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 651182008195 ATP binding site [chemical binding]; other site 651182008196 Mg2+ binding site [ion binding]; other site 651182008197 G-X-G motif; other site 651182008198 PAS domain; Region: PAS_9; pfam13426 651182008199 PAS domain; Region: PAS_9; pfam13426 651182008200 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 651182008201 dimer interface [polypeptide binding]; other site 651182008202 phosphorylation site [posttranslational modification] 651182008203 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 651182008204 ATP binding site [chemical binding]; other site 651182008205 Mg2+ binding site [ion binding]; other site 651182008206 G-X-G motif; other site 651182008207 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 651182008208 Sel1-like repeats; Region: SEL1; smart00671 651182008209 Sel1-like repeats; Region: SEL1; smart00671 651182008210 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 651182008211 Sel1-like repeats; Region: SEL1; smart00671 651182008212 Sel1-like repeats; Region: SEL1; smart00671 651182008213 Sel1-like repeats; Region: SEL1; smart00671 651182008214 Sel1-like repeats; Region: SEL1; smart00671 651182008215 Sel1-like repeats; Region: SEL1; smart00671 651182008216 Sel1-like repeats; Region: SEL1; smart00671 651182008217 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182008218 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182008219 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182008220 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182008221 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182008222 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182008223 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182008224 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 651182008225 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182008226 active site 651182008227 phosphorylation site [posttranslational modification] 651182008228 intermolecular recognition site; other site 651182008229 dimerization interface [polypeptide binding]; other site 651182008230 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 651182008231 DNA binding residues [nucleotide binding] 651182008232 dimerization interface [polypeptide binding]; other site 651182008233 Cache domain; Region: Cache_1; pfam02743 651182008234 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 651182008235 dimerization interface [polypeptide binding]; other site 651182008236 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 651182008237 Histidine kinase; Region: HisKA_3; pfam07730 651182008238 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 651182008239 ATP binding site [chemical binding]; other site 651182008240 Mg2+ binding site [ion binding]; other site 651182008241 G-X-G motif; other site 651182008242 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 651182008243 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 651182008244 G1 box; other site 651182008245 GTP/Mg2+ binding site [chemical binding]; other site 651182008246 G2 box; other site 651182008247 Switch I region; other site 651182008248 G3 box; other site 651182008249 Switch II region; other site 651182008250 G4 box; other site 651182008251 G5 box; other site 651182008252 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 651182008253 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 651182008254 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 651182008255 dimerization interface 3.5A [polypeptide binding]; other site 651182008256 active site 651182008257 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 651182008258 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 651182008259 Cl- selectivity filter; other site 651182008260 Cl- binding residues [ion binding]; other site 651182008261 pore gating glutamate residue; other site 651182008262 dimer interface [polypeptide binding]; other site 651182008263 FOG: CBS domain [General function prediction only]; Region: COG0517 651182008264 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 651182008265 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 651182008266 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 651182008267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182008268 homodimer interface [polypeptide binding]; other site 651182008269 catalytic residue [active] 651182008270 KpsF/GutQ family protein; Region: kpsF; TIGR00393 651182008271 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 651182008272 putative active site [active] 651182008273 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 651182008274 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 651182008275 6-phosphofructokinase; Region: PLN02884 651182008276 active site 651182008277 ADP/pyrophosphate binding site [chemical binding]; other site 651182008278 dimerization interface [polypeptide binding]; other site 651182008279 allosteric effector site; other site 651182008280 fructose-1,6-bisphosphate binding site; other site 651182008281 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 651182008282 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 651182008283 putative ligand binding site [chemical binding]; other site 651182008284 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 651182008285 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 651182008286 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 651182008287 4Fe-4S binding domain; Region: Fer4; pfam00037 651182008288 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 651182008289 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182008290 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 651182008291 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182008292 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182008293 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182008294 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 651182008295 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 651182008296 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 651182008297 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 651182008298 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 651182008299 FAD binding pocket [chemical binding]; other site 651182008300 FAD binding motif [chemical binding]; other site 651182008301 phosphate binding motif [ion binding]; other site 651182008302 beta-alpha-beta structure motif; other site 651182008303 NAD binding pocket [chemical binding]; other site 651182008304 Iron coordination center [ion binding]; other site 651182008305 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 651182008306 DsrC like protein; Region: DsrC; pfam04358 651182008307 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 651182008308 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 651182008309 Predicted amidohydrolase [General function prediction only]; Region: COG0388 651182008310 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 651182008311 active site 651182008312 catalytic triad [active] 651182008313 dimer interface [polypeptide binding]; other site 651182008314 VacJ like lipoprotein; Region: VacJ; cl01073 651182008315 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 651182008316 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 651182008317 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 651182008318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 651182008319 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 651182008320 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 651182008321 Competence protein; Region: Competence; pfam03772 651182008322 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 651182008323 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 651182008324 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 651182008325 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 651182008326 hinge; other site 651182008327 active site 651182008328 PAS domain S-box; Region: sensory_box; TIGR00229 651182008329 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182008330 putative active site [active] 651182008331 heme pocket [chemical binding]; other site 651182008332 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 651182008333 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 651182008334 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 651182008335 dimer interface [polypeptide binding]; other site 651182008336 phosphorylation site [posttranslational modification] 651182008337 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 651182008338 ATP binding site [chemical binding]; other site 651182008339 Mg2+ binding site [ion binding]; other site 651182008340 G-X-G motif; other site 651182008341 Protein of unknown function DUF86; Region: DUF86; cl01031 651182008342 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 651182008343 active site 651182008344 NTP binding site [chemical binding]; other site 651182008345 metal binding triad [ion binding]; metal-binding site 651182008346 antibiotic binding site [chemical binding]; other site 651182008347 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 651182008348 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 651182008349 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 651182008350 ligand binding site [chemical binding]; other site 651182008351 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 651182008352 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 651182008353 ATP binding site [chemical binding]; other site 651182008354 putative Mg++ binding site [ion binding]; other site 651182008355 Restriction endonuclease; Region: Mrr_cat; pfam04471 651182008356 Nuclease-related domain; Region: NERD; pfam08378 651182008357 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 651182008358 Maf-like protein; Region: Maf; pfam02545 651182008359 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 651182008360 active site 651182008361 dimer interface [polypeptide binding]; other site 651182008362 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 651182008363 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 651182008364 catalytic residue [active] 651182008365 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 651182008366 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 651182008367 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 651182008368 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 651182008369 Walker A motif; other site 651182008370 ATP binding site [chemical binding]; other site 651182008371 Walker B motif; other site 651182008372 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 651182008373 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 651182008374 ligand binding site [chemical binding]; other site 651182008375 flexible hinge region; other site 651182008376 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 651182008377 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 651182008378 ABC transporter; Region: ABC_tran_2; pfam12848 651182008379 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 651182008380 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182008381 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182008382 active site 651182008383 phosphorylation site [posttranslational modification] 651182008384 intermolecular recognition site; other site 651182008385 dimerization interface [polypeptide binding]; other site 651182008386 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 651182008387 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 651182008388 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 651182008389 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 651182008390 active site 651182008391 intersubunit interactions; other site 651182008392 catalytic residue [active] 651182008393 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 651182008394 catalytic center binding site [active] 651182008395 ATP binding site [chemical binding]; other site 651182008396 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 651182008397 Interdomain contacts; other site 651182008398 Cytokine receptor motif; other site 651182008399 argininosuccinate lyase; Provisional; Region: PRK00855 651182008400 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 651182008401 active sites [active] 651182008402 tetramer interface [polypeptide binding]; other site 651182008403 ornithine carbamoyltransferase; Provisional; Region: PRK00779 651182008404 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 651182008405 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 651182008406 acetylornithine aminotransferase; Provisional; Region: PRK02627 651182008407 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 651182008408 inhibitor-cofactor binding pocket; inhibition site 651182008409 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182008410 catalytic residue [active] 651182008411 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 651182008412 feedback inhibition sensing region; other site 651182008413 homohexameric interface [polypeptide binding]; other site 651182008414 nucleotide binding site [chemical binding]; other site 651182008415 N-acetyl-L-glutamate binding site [chemical binding]; other site 651182008416 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 651182008417 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 651182008418 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 651182008419 Walker A motif; other site 651182008420 ATP binding site [chemical binding]; other site 651182008421 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 651182008422 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 651182008423 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 651182008424 active site 651182008425 HslU subunit interaction site [polypeptide binding]; other site 651182008426 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 651182008427 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 651182008428 active site 651182008429 DNA binding site [nucleotide binding] 651182008430 Int/Topo IB signature motif; other site 651182008431 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 651182008432 active site 651182008433 DEAD-like helicases superfamily; Region: DEXDc; smart00487 651182008434 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 651182008435 ATP binding site [chemical binding]; other site 651182008436 putative Mg++ binding site [ion binding]; other site 651182008437 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 651182008438 nucleotide binding region [chemical binding]; other site 651182008439 ATP-binding site [chemical binding]; other site 651182008440 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 651182008441 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 651182008442 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182008443 Walker A/P-loop; other site 651182008444 ATP binding site [chemical binding]; other site 651182008445 Q-loop/lid; other site 651182008446 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 651182008447 ABC transporter; Region: ABC_tran_2; pfam12848 651182008448 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 651182008449 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 651182008450 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 651182008451 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 651182008452 FeS/SAM binding site; other site 651182008453 Radical SAM superfamily; Region: Radical_SAM; pfam04055 651182008454 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 651182008455 active site 651182008456 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 651182008457 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 651182008458 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 651182008459 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 651182008460 Prephenate dehydratase; Region: PDT; pfam00800 651182008461 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 651182008462 putative L-Phe binding site [chemical binding]; other site 651182008463 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 651182008464 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 651182008465 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 651182008466 oligomer interface [polypeptide binding]; other site 651182008467 metal binding site [ion binding]; metal-binding site 651182008468 metal binding site [ion binding]; metal-binding site 651182008469 Cl binding site [ion binding]; other site 651182008470 aspartate ring; other site 651182008471 basic sphincter; other site 651182008472 putative hydrophobic gate; other site 651182008473 periplasmic entrance; other site 651182008474 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 651182008475 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 651182008476 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 651182008477 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 651182008478 tetrameric interface [polypeptide binding]; other site 651182008479 activator binding site; other site 651182008480 NADP binding site [chemical binding]; other site 651182008481 substrate binding site [chemical binding]; other site 651182008482 catalytic residues [active] 651182008483 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 651182008484 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 651182008485 putative active site; other site 651182008486 catalytic residue [active] 651182008487 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 651182008488 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 651182008489 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 651182008490 active site 651182008491 catalytic site [active] 651182008492 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 651182008493 glycogen synthase; Provisional; Region: glgA; PRK00654 651182008494 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 651182008495 ADP-binding pocket [chemical binding]; other site 651182008496 homodimer interface [polypeptide binding]; other site 651182008497 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 651182008498 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 651182008499 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 651182008500 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 651182008501 active site 651182008502 catalytic site [active] 651182008503 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 651182008504 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 651182008505 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 651182008506 nucleotide binding site/active site [active] 651182008507 HIT family signature motif; other site 651182008508 catalytic residue [active] 651182008509 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 651182008510 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 651182008511 ATP binding site [chemical binding]; other site 651182008512 substrate interface [chemical binding]; other site 651182008513 ThiS family; Region: ThiS; pfam02597 651182008514 charged pocket; other site 651182008515 hydrophobic patch; other site 651182008516 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182008517 dimer interface [polypeptide binding]; other site 651182008518 putative CheW interface [polypeptide binding]; other site 651182008519 Rhomboid family; Region: Rhomboid; pfam01694 651182008520 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182008521 dimer interface [polypeptide binding]; other site 651182008522 putative CheW interface [polypeptide binding]; other site 651182008523 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 651182008524 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 651182008525 active site 651182008526 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 651182008527 active site 651182008528 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 651182008529 active site 2 [active] 651182008530 dimer interface [polypeptide binding]; other site 651182008531 active site 1 [active] 651182008532 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 651182008533 active site 1 [active] 651182008534 dimer interface [polypeptide binding]; other site 651182008535 active site 2 [active] 651182008536 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 651182008537 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182008538 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 651182008539 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 651182008540 active site 651182008541 haloalkane dehalogenase; Provisional; Region: PRK03592 651182008542 peptide synthase; Provisional; Region: PRK09274 651182008543 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 651182008544 acyl-activating enzyme (AAE) consensus motif; other site 651182008545 putative AMP binding site [chemical binding]; other site 651182008546 putative active site [active] 651182008547 putative CoA binding site [chemical binding]; other site 651182008548 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 651182008549 FOG: CBS domain [General function prediction only]; Region: COG0517 651182008550 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 651182008551 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 651182008552 Uncharacterized conserved protein [Function unknown]; Region: COG1656 651182008553 Protein of unknown function DUF82; Region: DUF82; pfam01927 651182008554 SlyX; Region: SlyX; pfam04102 651182008555 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 651182008556 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 651182008557 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 651182008558 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 651182008559 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 651182008560 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 651182008561 putative ribose interaction site [chemical binding]; other site 651182008562 putative ADP binding site [chemical binding]; other site 651182008563 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 651182008564 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 651182008565 motif II; other site 651182008566 homoserine dehydrogenase; Provisional; Region: PRK06349 651182008567 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 651182008568 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 651182008569 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 651182008570 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 651182008571 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 651182008572 dimerization interface [polypeptide binding]; other site 651182008573 putative ATP binding site [chemical binding]; other site 651182008574 UGMP family protein; Validated; Region: PRK09604 651182008575 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 651182008576 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 651182008577 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 651182008578 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 651182008579 Bacterial SH3 domain; Region: SH3_3; pfam08239 651182008580 aconitate hydratase; Validated; Region: PRK09277 651182008581 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 651182008582 substrate binding site [chemical binding]; other site 651182008583 ligand binding site [chemical binding]; other site 651182008584 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 651182008585 substrate binding site [chemical binding]; other site 651182008586 malate dehydrogenase; Provisional; Region: PRK13529 651182008587 Malic enzyme, N-terminal domain; Region: malic; pfam00390 651182008588 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 651182008589 NAD(P) binding site [chemical binding]; other site 651182008590 flagellin; Provisional; Region: PRK12802 651182008591 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 651182008592 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 651182008593 penicillin-binding protein 1C; Provisional; Region: PRK11240 651182008594 Transglycosylase; Region: Transgly; pfam00912 651182008595 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 651182008596 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 651182008597 RelB antitoxin; Region: RelB; cl01171 651182008598 Uncharacterized conserved protein [Function unknown]; Region: COG1262 651182008599 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 651182008600 Caspase domain; Region: Peptidase_C14; pfam00656 651182008601 PEGA domain; Region: PEGA; pfam08308 651182008602 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 651182008603 non-specific DNA binding site [nucleotide binding]; other site 651182008604 salt bridge; other site 651182008605 sequence-specific DNA binding site [nucleotide binding]; other site 651182008606 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 651182008607 MG2 domain; Region: A2M_N; pfam01835 651182008608 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 651182008609 surface patch; other site 651182008610 thioester region; other site 651182008611 specificity defining residues; other site 651182008612 Flagellin N-methylase; Region: FliB; cl00497 651182008613 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 651182008614 PemK-like protein; Region: PemK; cl00995 651182008615 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 651182008616 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 651182008617 Caspase domain; Region: Peptidase_C14; pfam00656 651182008618 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 651182008619 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 651182008620 Protein of unknown function (DUF3160); Region: DUF3160; pfam11369 651182008621 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 651182008622 binding surface 651182008623 TPR motif; other site 651182008624 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 651182008625 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 651182008626 ligand binding site [chemical binding]; other site 651182008627 Caspase domain; Region: Peptidase_C14; pfam00656 651182008628 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 651182008629 hypothetical protein; Reviewed; Region: PRK12275 651182008630 four helix bundle protein; Region: TIGR02436 651182008631 FOG: WD40 repeat [General function prediction only]; Region: COG2319 651182008632 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 651182008633 structural tetrad; other site 651182008634 Caspase domain; Region: Peptidase_C14; pfam00656 651182008635 FOG: WD40 repeat [General function prediction only]; Region: COG2319 651182008636 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 651182008637 structural tetrad; other site 651182008638 Caspase domain; Region: Peptidase_C14; pfam00656 651182008639 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 651182008640 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 651182008641 N-acetyl-D-glucosamine binding site [chemical binding]; other site 651182008642 catalytic residue [active] 651182008643 hypothetical protein; Provisional; Region: PRK11281 651182008644 aldehyde oxidase; Region: PLN00192 651182008645 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 651182008646 DNA binding residues [nucleotide binding] 651182008647 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 651182008648 PEGA domain; Region: PEGA; pfam08308 651182008649 PEGA domain; Region: PEGA; pfam08308 651182008650 Uncharacterized conserved protein [Function unknown]; Region: COG1262 651182008651 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 651182008652 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 651182008653 SPFH domain / Band 7 family; Region: Band_7; pfam01145 651182008654 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 651182008655 nudix motif; other site 651182008656 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 651182008657 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 651182008658 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 651182008659 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 651182008660 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 651182008661 Surface antigen; Region: Bac_surface_Ag; pfam01103 651182008662 Family of unknown function (DUF490); Region: DUF490; pfam04357 651182008663 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 651182008664 Mechanosensitive ion channel; Region: MS_channel; pfam00924 651182008665 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 651182008666 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 651182008667 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 651182008668 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 651182008669 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 651182008670 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 651182008671 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 651182008672 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 651182008673 active site residue [active] 651182008674 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 651182008675 active site residue [active] 651182008676 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 651182008677 active site residue [active] 651182008678 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 651182008679 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 651182008680 active site residue [active] 651182008681 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 651182008682 active site residue [active] 651182008683 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 651182008684 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 651182008685 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 651182008686 AAA domain; Region: AAA_32; pfam13654 651182008687 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 651182008688 CoA binding domain; Region: CoA_binding_2; pfam13380 651182008689 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 651182008690 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 651182008691 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 651182008692 Coenzyme A binding pocket [chemical binding]; other site 651182008693 AAA domain; Region: AAA_22; pfam13401 651182008694 AAA domain; Region: AAA_14; pfam13173 651182008695 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 651182008696 Amino acid permease; Region: AA_permease; pfam00324 651182008697 Response regulator receiver domain; Region: Response_reg; pfam00072 651182008698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182008699 active site 651182008700 phosphorylation site [posttranslational modification] 651182008701 intermolecular recognition site; other site 651182008702 dimerization interface [polypeptide binding]; other site 651182008703 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 651182008704 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182008705 putative active site [active] 651182008706 heme pocket [chemical binding]; other site 651182008707 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 651182008708 dimer interface [polypeptide binding]; other site 651182008709 phosphorylation site [posttranslational modification] 651182008710 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 651182008711 ATP binding site [chemical binding]; other site 651182008712 Mg2+ binding site [ion binding]; other site 651182008713 G-X-G motif; other site 651182008714 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182008715 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 651182008716 putative active site [active] 651182008717 heme pocket [chemical binding]; other site 651182008718 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182008719 putative active site [active] 651182008720 heme pocket [chemical binding]; other site 651182008721 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 651182008722 dimer interface [polypeptide binding]; other site 651182008723 phosphorylation site [posttranslational modification] 651182008724 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 651182008725 ATP binding site [chemical binding]; other site 651182008726 Mg2+ binding site [ion binding]; other site 651182008727 G-X-G motif; other site 651182008728 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 651182008729 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182008730 active site 651182008731 phosphorylation site [posttranslational modification] 651182008732 intermolecular recognition site; other site 651182008733 dimerization interface [polypeptide binding]; other site 651182008734 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 651182008735 FAD binding site [chemical binding]; other site 651182008736 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 651182008737 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182008738 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182008739 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182008740 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182008741 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 651182008742 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 651182008743 4Fe-4S binding domain; Region: Fer4; pfam00037 651182008744 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; cl00246 651182008745 FAD binding site [chemical binding]; other site 651182008746 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 651182008747 EamA-like transporter family; Region: EamA; pfam00892 651182008748 EamA-like transporter family; Region: EamA; pfam00892 651182008749 Predicted periplasmic protein (DUF2092); Region: DUF2092; cl17607 651182008750 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 651182008751 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 651182008752 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 651182008753 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 651182008754 dimer interface [polypeptide binding]; other site 651182008755 conserved gate region; other site 651182008756 putative PBP binding loops; other site 651182008757 ABC-ATPase subunit interface; other site 651182008758 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 651182008759 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 651182008760 dimer interface [polypeptide binding]; other site 651182008761 conserved gate region; other site 651182008762 putative PBP binding loops; other site 651182008763 ABC-ATPase subunit interface; other site 651182008764 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 651182008765 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 651182008766 Walker A/P-loop; other site 651182008767 ATP binding site [chemical binding]; other site 651182008768 Q-loop/lid; other site 651182008769 ABC transporter signature motif; other site 651182008770 Walker B; other site 651182008771 D-loop; other site 651182008772 H-loop/switch region; other site 651182008773 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 651182008774 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 651182008775 Walker A/P-loop; other site 651182008776 ATP binding site [chemical binding]; other site 651182008777 Q-loop/lid; other site 651182008778 ABC transporter signature motif; other site 651182008779 Walker B; other site 651182008780 D-loop; other site 651182008781 H-loop/switch region; other site 651182008782 integron integrase; Region: integrase_gron; TIGR02249 651182008783 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 651182008784 Int/Topo IB signature motif; other site 651182008785 AAA ATPase domain; Region: AAA_15; pfam13175 651182008786 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182008787 Walker A/P-loop; other site 651182008788 ATP binding site [chemical binding]; other site 651182008789 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 651182008790 putative active site [active] 651182008791 putative metal-binding site [ion binding]; other site 651182008792 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 651182008793 Family description; Region: UvrD_C_2; pfam13538 651182008794 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 651182008795 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 651182008796 active site 651182008797 DNA binding site [nucleotide binding] 651182008798 Int/Topo IB signature motif; other site 651182008799 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 651182008800 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 651182008801 active site 651182008802 DNA binding site [nucleotide binding] 651182008803 Int/Topo IB signature motif; other site 651182008804 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 651182008805 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 651182008806 active site 651182008807 DNA binding site [nucleotide binding] 651182008808 Int/Topo IB signature motif; other site 651182008809 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 651182008810 AAA domain; Region: AAA_21; pfam13304 651182008811 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182008812 ABC transporter signature motif; other site 651182008813 Walker B; other site 651182008814 D-loop; other site 651182008815 H-loop/switch region; other site 651182008816 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 651182008817 putative active site [active] 651182008818 putative metal-binding site [ion binding]; other site 651182008819 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 651182008820 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182008821 putative active site [active] 651182008822 putative NTP binding site [chemical binding]; other site 651182008823 putative nucleic acid binding site [nucleotide binding]; other site 651182008824 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182008825 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 651182008826 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182008827 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 651182008828 FeS/SAM binding site; other site 651182008829 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 651182008830 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182008831 Zn2+ binding site [ion binding]; other site 651182008832 Mg2+ binding site [ion binding]; other site 651182008833 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 651182008834 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 651182008835 active site 651182008836 DNA binding site [nucleotide binding] 651182008837 Int/Topo IB signature motif; other site 651182008838 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 651182008839 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 651182008840 active site 651182008841 DNA binding site [nucleotide binding] 651182008842 Int/Topo IB signature motif; other site 651182008843 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 651182008844 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 651182008845 active site 651182008846 DNA binding site [nucleotide binding] 651182008847 Int/Topo IB signature motif; other site 651182008848 Restriction endonuclease; Region: Mrr_cat; pfam04471 651182008849 DDE superfamily endonuclease; Region: DDE_5; cl17874 651182008850 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 651182008851 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 651182008852 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 651182008853 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 651182008854 hypothetical protein; Provisional; Region: PRK06153 651182008855 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 651182008856 ATP binding site [chemical binding]; other site 651182008857 substrate interface [chemical binding]; other site 651182008858 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 651182008859 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 651182008860 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 651182008861 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 651182008862 Domain of unknown function (DUF955); Region: DUF955; pfam06114 651182008863 Helix-turn-helix domain; Region: HTH_28; pfam13518 651182008864 Winged helix-turn helix; Region: HTH_29; pfam13551 651182008865 Homeodomain-like domain; Region: HTH_32; pfam13565 651182008866 Integrase core domain; Region: rve; pfam00665 651182008867 Integrase core domain; Region: rve_3; pfam13683 651182008868 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 651182008869 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 651182008870 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182008871 putative active site [active] 651182008872 putative NTP binding site [chemical binding]; other site 651182008873 putative nucleic acid binding site [nucleotide binding]; other site 651182008874 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182008875 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 651182008876 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 651182008877 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 651182008878 Putative transposase; Region: Y2_Tnp; pfam04986 651182008879 integron integrase; Region: integrase_gron; TIGR02249 651182008880 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 651182008881 active site 651182008882 DNA binding site [nucleotide binding] 651182008883 Int/Topo IB signature motif; other site 651182008884 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 651182008885 ferredoxin-NADP reductase; Provisional; Region: PRK10926 651182008886 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 651182008887 FAD binding pocket [chemical binding]; other site 651182008888 FAD binding motif [chemical binding]; other site 651182008889 phosphate binding motif [ion binding]; other site 651182008890 beta-alpha-beta structure motif; other site 651182008891 NAD binding pocket [chemical binding]; other site 651182008892 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 651182008893 active site 651182008894 catalytic residues [active] 651182008895 metal binding site [ion binding]; metal-binding site 651182008896 Putative transposase; Region: Y2_Tnp; pfam04986 651182008897 Winged helix-turn helix; Region: HTH_29; pfam13551 651182008898 Homeodomain-like domain; Region: HTH_32; pfam13565 651182008899 Integrase core domain; Region: rve; pfam00665 651182008900 Integrase core domain; Region: rve_3; pfam13683 651182008901 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 651182008902 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182008903 putative active site [active] 651182008904 putative NTP binding site [chemical binding]; other site 651182008905 putative nucleic acid binding site [nucleotide binding]; other site 651182008906 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182008907 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 651182008908 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 651182008909 Walker A motif; other site 651182008910 ATP binding site [chemical binding]; other site 651182008911 Walker B motif; other site 651182008912 Integrase core domain; Region: rve; pfam00665 651182008913 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 651182008914 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 651182008915 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 651182008916 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 651182008917 Walker A motif; other site 651182008918 ATP binding site [chemical binding]; other site 651182008919 Walker B motif; other site 651182008920 arginine finger; other site 651182008921 Uncharacterized conserved protein [Function unknown]; Region: COG2006 651182008922 Domain of unknown function (DUF362); Region: DUF362; pfam04015 651182008923 Uncharacterized conserved protein [Function unknown]; Region: COG2006 651182008924 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 651182008925 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 651182008926 TrkA-C domain; Region: TrkA_C; pfam02080 651182008927 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 651182008928 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 651182008929 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 651182008930 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 651182008931 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 651182008932 ATP binding site [chemical binding]; other site 651182008933 Mg++ binding site [ion binding]; other site 651182008934 motif III; other site 651182008935 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 651182008936 nucleotide binding region [chemical binding]; other site 651182008937 ATP-binding site [chemical binding]; other site 651182008938 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 651182008939 putative RNA binding site [nucleotide binding]; other site 651182008940 Predicted GTPases [General function prediction only]; Region: COG1162 651182008941 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 651182008942 GTPase/Zn-binding domain interface [polypeptide binding]; other site 651182008943 GTP/Mg2+ binding site [chemical binding]; other site 651182008944 G4 box; other site 651182008945 G5 box; other site 651182008946 G1 box; other site 651182008947 Switch I region; other site 651182008948 G2 box; other site 651182008949 G3 box; other site 651182008950 Switch II region; other site 651182008951 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 651182008952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182008953 active site 651182008954 phosphorylation site [posttranslational modification] 651182008955 intermolecular recognition site; other site 651182008956 dimerization interface [polypeptide binding]; other site 651182008957 LytTr DNA-binding domain; Region: LytTR; smart00850 651182008958 Response regulator receiver domain; Region: Response_reg; pfam00072 651182008959 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182008960 active site 651182008961 phosphorylation site [posttranslational modification] 651182008962 intermolecular recognition site; other site 651182008963 dimerization interface [polypeptide binding]; other site 651182008964 Histidine kinase; Region: His_kinase; pfam06580 651182008965 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 651182008966 ATP binding site [chemical binding]; other site 651182008967 Mg2+ binding site [ion binding]; other site 651182008968 G-X-G motif; other site 651182008969 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 651182008970 Winged helix-turn helix; Region: HTH_29; pfam13551 651182008971 Homeodomain-like domain; Region: HTH_32; pfam13565 651182008972 Integrase core domain; Region: rve; pfam00665 651182008973 Integrase core domain; Region: rve_3; pfam13683 651182008974 Helix-turn-helix domain; Region: HTH_28; pfam13518 651182008975 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 651182008976 nucleophilic elbow; other site 651182008977 catalytic triad; other site 651182008978 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 651182008979 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 651182008980 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 651182008981 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 651182008982 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 651182008983 Cadherin repeat-like domain; Region: CA_like; cl15786 651182008984 Ca2+ binding site [ion binding]; other site 651182008985 Cadherin repeat-like domain; Region: CA_like; cl15786 651182008986 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 651182008987 Ca2+ binding site [ion binding]; other site 651182008988 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 651182008989 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182008990 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 651182008991 Cysteine-rich domain; Region: CCG; pfam02754 651182008992 Cysteine-rich domain; Region: CCG; pfam02754 651182008993 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 651182008994 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 651182008995 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182008996 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182008997 putative active site [active] 651182008998 heme pocket [chemical binding]; other site 651182008999 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 651182009000 dimer interface [polypeptide binding]; other site 651182009001 phosphorylation site [posttranslational modification] 651182009002 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 651182009003 ATP binding site [chemical binding]; other site 651182009004 Mg2+ binding site [ion binding]; other site 651182009005 G-X-G motif; other site 651182009006 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 651182009007 S-adenosylmethionine binding site [chemical binding]; other site 651182009008 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 651182009009 Sodium Bile acid symporter family; Region: SBF; cl17470 651182009010 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 651182009011 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 651182009012 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 651182009013 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 651182009014 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 651182009015 FtsX-like permease family; Region: FtsX; pfam02687 651182009016 FtsX-like permease family; Region: FtsX; pfam02687 651182009017 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 651182009018 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 651182009019 Walker A/P-loop; other site 651182009020 ATP binding site [chemical binding]; other site 651182009021 Q-loop/lid; other site 651182009022 ABC transporter signature motif; other site 651182009023 Walker B; other site 651182009024 D-loop; other site 651182009025 H-loop/switch region; other site 651182009026 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 651182009027 active site 651182009028 catalytic triad [active] 651182009029 oxyanion hole [active] 651182009030 switch loop; other site 651182009031 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 651182009032 EamA-like transporter family; Region: EamA; cl17759 651182009033 EamA-like transporter family; Region: EamA; pfam00892 651182009034 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 651182009035 Yqey-like protein; Region: YqeY; cl17540 651182009036 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182009037 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 651182009038 Methyltransferase domain; Region: Methyltransf_23; pfam13489 651182009039 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 651182009040 S-adenosylmethionine binding site [chemical binding]; other site 651182009041 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 651182009042 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 651182009043 putative metal binding site [ion binding]; other site 651182009044 Methyltransferase domain; Region: Methyltransf_23; pfam13489 651182009045 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 651182009046 S-adenosylmethionine binding site [chemical binding]; other site 651182009047 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 651182009048 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 651182009049 N-terminal plug; other site 651182009050 ligand-binding site [chemical binding]; other site 651182009051 CHASE2 domain; Region: CHASE2; cl01732 651182009052 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 651182009053 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 651182009054 Tetratricopeptide repeat; Region: TPR_12; pfam13424 651182009055 CHAT domain; Region: CHAT; cl17868 651182009056 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182009057 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 651182009058 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182009059 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182009060 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 651182009061 Flavoprotein; Region: Flavoprotein; pfam02441 651182009062 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 651182009063 Ligand Binding Site [chemical binding]; other site 651182009064 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 651182009065 substrate binding site [chemical binding]; other site 651182009066 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 651182009067 DctM-like transporters; Region: DctM; pfam06808 651182009068 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 651182009069 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 651182009070 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 651182009071 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182009072 acyl-activating enzyme (AAE) consensus motif; other site 651182009073 AMP binding site [chemical binding]; other site 651182009074 active site 651182009075 CoA binding site [chemical binding]; other site 651182009076 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 651182009077 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 651182009078 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182009079 Transposase; Region: HTH_Tnp_1; cl17663 651182009080 HTH-like domain; Region: HTH_21; pfam13276 651182009081 Transcriptional regulator [Transcription]; Region: LysR; COG0583 651182009082 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 651182009083 LysR substrate binding domain; Region: LysR_substrate; pfam03466 651182009084 dimerization interface [polypeptide binding]; other site 651182009085 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 651182009086 putative transposase OrfB; Reviewed; Region: PHA02517 651182009087 HTH-like domain; Region: HTH_21; pfam13276 651182009088 Integrase core domain; Region: rve; pfam00665 651182009089 Integrase core domain; Region: rve_3; pfam13683 651182009090 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182009091 Transposase; Region: HTH_Tnp_1; cl17663 651182009092 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 651182009093 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 651182009094 active site 651182009095 metal binding site [ion binding]; metal-binding site 651182009096 nudix motif; other site 651182009097 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182009098 dimer interface [polypeptide binding]; other site 651182009099 putative CheW interface [polypeptide binding]; other site 651182009100 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 651182009101 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 651182009102 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 651182009103 Flavoprotein; Region: Flavoprotein; pfam02441 651182009104 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 651182009105 Ligand Binding Site [chemical binding]; other site 651182009106 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 651182009107 substrate binding site [chemical binding]; other site 651182009108 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 651182009109 DctM-like transporters; Region: DctM; pfam06808 651182009110 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 651182009111 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 651182009112 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 651182009113 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182009114 acyl-activating enzyme (AAE) consensus motif; other site 651182009115 AMP binding site [chemical binding]; other site 651182009116 active site 651182009117 CoA binding site [chemical binding]; other site 651182009118 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 651182009119 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 651182009120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182009121 Transposase; Region: HTH_Tnp_1; cl17663 651182009122 HTH-like domain; Region: HTH_21; pfam13276 651182009123 Transcriptional regulator [Transcription]; Region: LysR; COG0583 651182009124 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 651182009125 LysR substrate binding domain; Region: LysR_substrate; pfam03466 651182009126 dimerization interface [polypeptide binding]; other site 651182009127 putative transposase OrfB; Reviewed; Region: PHA02517 651182009128 HTH-like domain; Region: HTH_21; pfam13276 651182009129 Integrase core domain; Region: rve; pfam00665 651182009130 Integrase core domain; Region: rve_3; pfam13683 651182009131 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182009132 Transposase; Region: HTH_Tnp_1; cl17663 651182009133 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 651182009134 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 651182009135 active site 651182009136 metal binding site [ion binding]; metal-binding site 651182009137 nudix motif; other site 651182009138 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182009139 dimer interface [polypeptide binding]; other site 651182009140 putative CheW interface [polypeptide binding]; other site 651182009141 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 651182009142 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 651182009143 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 651182009144 Flavoprotein; Region: Flavoprotein; pfam02441 651182009145 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 651182009146 Ligand Binding Site [chemical binding]; other site 651182009147 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 651182009148 substrate binding site [chemical binding]; other site 651182009149 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 651182009150 DctM-like transporters; Region: DctM; pfam06808 651182009151 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 651182009152 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 651182009153 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 651182009154 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182009155 acyl-activating enzyme (AAE) consensus motif; other site 651182009156 AMP binding site [chemical binding]; other site 651182009157 active site 651182009158 CoA binding site [chemical binding]; other site 651182009159 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 651182009160 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 651182009161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182009162 Transposase; Region: HTH_Tnp_1; cl17663 651182009163 HTH-like domain; Region: HTH_21; pfam13276 651182009164 Transcriptional regulator [Transcription]; Region: LysR; COG0583 651182009165 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 651182009166 LysR substrate binding domain; Region: LysR_substrate; pfam03466 651182009167 dimerization interface [polypeptide binding]; other site 651182009168 putative transposase OrfB; Reviewed; Region: PHA02517 651182009169 HTH-like domain; Region: HTH_21; pfam13276 651182009170 Integrase core domain; Region: rve; pfam00665 651182009171 Integrase core domain; Region: rve_3; pfam13683 651182009172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182009173 Transposase; Region: HTH_Tnp_1; cl17663 651182009174 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 651182009175 putative transposase OrfB; Reviewed; Region: PHA02517 651182009176 HTH-like domain; Region: HTH_21; pfam13276 651182009177 Integrase core domain; Region: rve; pfam00665 651182009178 Integrase core domain; Region: rve_3; pfam13683 651182009179 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182009180 Transposase; Region: HTH_Tnp_1; cl17663 651182009181 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 651182009182 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 651182009183 active site 651182009184 metal binding site [ion binding]; metal-binding site 651182009185 nudix motif; other site 651182009186 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182009187 dimer interface [polypeptide binding]; other site 651182009188 putative CheW interface [polypeptide binding]; other site 651182009189 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 651182009190 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 651182009191 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 651182009192 Flavoprotein; Region: Flavoprotein; pfam02441 651182009193 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 651182009194 Ligand Binding Site [chemical binding]; other site 651182009195 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 651182009196 substrate binding site [chemical binding]; other site 651182009197 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 651182009198 DctM-like transporters; Region: DctM; pfam06808 651182009199 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 651182009200 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 651182009201 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 651182009202 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182009203 acyl-activating enzyme (AAE) consensus motif; other site 651182009204 AMP binding site [chemical binding]; other site 651182009205 active site 651182009206 CoA binding site [chemical binding]; other site 651182009207 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 651182009208 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 651182009209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182009210 Transposase; Region: HTH_Tnp_1; cl17663 651182009211 HTH-like domain; Region: HTH_21; pfam13276 651182009212 Transcriptional regulator [Transcription]; Region: LysR; COG0583 651182009213 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 651182009214 LysR substrate binding domain; Region: LysR_substrate; pfam03466 651182009215 dimerization interface [polypeptide binding]; other site 651182009216 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 651182009217 putative transposase OrfB; Reviewed; Region: PHA02517 651182009218 HTH-like domain; Region: HTH_21; pfam13276 651182009219 Integrase core domain; Region: rve; pfam00665 651182009220 Integrase core domain; Region: rve_3; pfam13683 651182009221 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182009222 Transposase; Region: HTH_Tnp_1; cl17663 651182009223 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 651182009224 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 651182009225 active site 651182009226 metal binding site [ion binding]; metal-binding site 651182009227 nudix motif; other site 651182009228 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182009229 dimer interface [polypeptide binding]; other site 651182009230 putative CheW interface [polypeptide binding]; other site 651182009231 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 651182009232 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 651182009233 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 651182009234 Flavoprotein; Region: Flavoprotein; pfam02441 651182009235 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 651182009236 Ligand Binding Site [chemical binding]; other site 651182009237 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 651182009238 substrate binding site [chemical binding]; other site 651182009239 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 651182009240 DctM-like transporters; Region: DctM; pfam06808 651182009241 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 651182009242 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 651182009243 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 651182009244 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182009245 acyl-activating enzyme (AAE) consensus motif; other site 651182009246 AMP binding site [chemical binding]; other site 651182009247 active site 651182009248 CoA binding site [chemical binding]; other site 651182009249 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 651182009250 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 651182009251 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182009252 Transposase; Region: HTH_Tnp_1; cl17663 651182009253 HTH-like domain; Region: HTH_21; pfam13276 651182009254 Transcriptional regulator [Transcription]; Region: LysR; COG0583 651182009255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 651182009256 LysR substrate binding domain; Region: LysR_substrate; pfam03466 651182009257 dimerization interface [polypeptide binding]; other site 651182009258 putative transposase OrfB; Reviewed; Region: PHA02517 651182009259 HTH-like domain; Region: HTH_21; pfam13276 651182009260 Integrase core domain; Region: rve; pfam00665 651182009261 Integrase core domain; Region: rve_3; pfam13683 651182009262 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182009263 Transposase; Region: HTH_Tnp_1; cl17663 651182009264 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 651182009265 putative transposase OrfB; Reviewed; Region: PHA02517 651182009266 HTH-like domain; Region: HTH_21; pfam13276 651182009267 Integrase core domain; Region: rve; pfam00665 651182009268 Integrase core domain; Region: rve_3; pfam13683 651182009269 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182009270 Transposase; Region: HTH_Tnp_1; cl17663 651182009271 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 651182009272 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 651182009273 active site 651182009274 metal binding site [ion binding]; metal-binding site 651182009275 nudix motif; other site 651182009276 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182009277 dimer interface [polypeptide binding]; other site 651182009278 putative CheW interface [polypeptide binding]; other site 651182009279 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 651182009280 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 651182009281 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182009282 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 651182009283 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182009284 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182009285 haemagglutination activity domain; Region: Haemagg_act; pfam05860 651182009286 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 651182009287 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182009288 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182009289 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182009290 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182009291 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182009292 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182009293 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182009294 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 651182009295 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 651182009296 Surface antigen; Region: Bac_surface_Ag; pfam01103 651182009297 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 651182009298 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 651182009299 putative substrate binding site [chemical binding]; other site 651182009300 nucleotide binding site [chemical binding]; other site 651182009301 nucleotide binding site [chemical binding]; other site 651182009302 homodimer interface [polypeptide binding]; other site 651182009303 Predicted GTPase [General function prediction only]; Region: COG2403 651182009304 Domain of unknown function DUF21; Region: DUF21; pfam01595 651182009305 FOG: CBS domain [General function prediction only]; Region: COG0517 651182009306 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 651182009307 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 651182009308 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 651182009309 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 651182009310 transcriptional regulator, y4mF family; Region: couple_hipB; TIGR03070 651182009311 non-specific DNA binding site [nucleotide binding]; other site 651182009312 salt bridge; other site 651182009313 sequence-specific DNA binding site [nucleotide binding]; other site 651182009314 HipA N-terminal domain; Region: Couple_hipA; pfam13657 651182009315 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 651182009316 HipA-like N-terminal domain; Region: HipA_N; pfam07805 651182009317 HipA-like C-terminal domain; Region: HipA_C; pfam07804 651182009318 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 651182009319 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 651182009320 active site 651182009321 DNA binding site [nucleotide binding] 651182009322 Int/Topo IB signature motif; other site 651182009323 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 651182009324 hypothetical protein; Provisional; Region: PRK11770 651182009325 Domain of unknown function (DUF307); Region: DUF307; pfam03733 651182009326 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 651182009327 active site residue [active] 651182009328 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 651182009329 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 651182009330 active site residue [active] 651182009331 CGGC domain; Region: CGGC; pfam08821 651182009332 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 651182009333 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 651182009334 putative active site [active] 651182009335 metal binding site [ion binding]; metal-binding site 651182009336 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 651182009337 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 651182009338 dimer interface [polypeptide binding]; other site 651182009339 phosphorylation site [posttranslational modification] 651182009340 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 651182009341 ATP binding site [chemical binding]; other site 651182009342 Mg2+ binding site [ion binding]; other site 651182009343 G-X-G motif; other site 651182009344 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182009345 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009346 active site 651182009347 phosphorylation site [posttranslational modification] 651182009348 intermolecular recognition site; other site 651182009349 dimerization interface [polypeptide binding]; other site 651182009350 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 651182009351 Walker A motif; other site 651182009352 ATP binding site [chemical binding]; other site 651182009353 Walker B motif; other site 651182009354 arginine finger; other site 651182009355 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182009356 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 651182009357 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 651182009358 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182009359 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 651182009360 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 651182009361 dimer interface [polypeptide binding]; other site 651182009362 active site 651182009363 metal binding site [ion binding]; metal-binding site 651182009364 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 651182009365 active site 651182009366 cosubstrate binding site; other site 651182009367 substrate binding site [chemical binding]; other site 651182009368 catalytic site [active] 651182009369 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 651182009370 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 651182009371 ATP-grasp domain; Region: ATP-grasp_4; cl17255 651182009372 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 651182009373 Major Facilitator Superfamily; Region: MFS_1; pfam07690 651182009374 putative substrate translocation pore; other site 651182009375 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 651182009376 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 651182009377 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 651182009378 catalytic residue [active] 651182009379 Cache domain; Region: Cache_1; pfam02743 651182009380 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 651182009381 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182009382 dimer interface [polypeptide binding]; other site 651182009383 putative CheW interface [polypeptide binding]; other site 651182009384 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182009385 dimer interface [polypeptide binding]; other site 651182009386 putative CheW interface [polypeptide binding]; other site 651182009387 Response regulator receiver domain; Region: Response_reg; pfam00072 651182009388 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009389 active site 651182009390 phosphorylation site [posttranslational modification] 651182009391 intermolecular recognition site; other site 651182009392 dimerization interface [polypeptide binding]; other site 651182009393 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182009394 putative active site [active] 651182009395 heme pocket [chemical binding]; other site 651182009396 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 651182009397 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 651182009398 Walker A motif; other site 651182009399 ATP binding site [chemical binding]; other site 651182009400 Walker B motif; other site 651182009401 arginine finger; other site 651182009402 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182009403 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 651182009404 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 651182009405 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 651182009406 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 651182009407 dimer interface [polypeptide binding]; other site 651182009408 PYR/PP interface [polypeptide binding]; other site 651182009409 TPP binding site [chemical binding]; other site 651182009410 substrate binding site [chemical binding]; other site 651182009411 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 651182009412 TPP-binding site; other site 651182009413 malate dehydrogenase; Reviewed; Region: PRK06223 651182009414 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 651182009415 NAD(P) binding site [chemical binding]; other site 651182009416 dimer interface [polypeptide binding]; other site 651182009417 tetramer (dimer of dimers) interface [polypeptide binding]; other site 651182009418 substrate binding site [chemical binding]; other site 651182009419 malate dehydrogenase; Reviewed; Region: PRK06223 651182009420 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 651182009421 NAD(P) binding site [chemical binding]; other site 651182009422 LDH/MDH dimer interface [polypeptide binding]; other site 651182009423 substrate binding site [chemical binding]; other site 651182009424 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 651182009425 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 651182009426 active site 651182009427 pyruvate phosphate dikinase; Provisional; Region: PRK09279 651182009428 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 651182009429 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 651182009430 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 651182009431 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 651182009432 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182009433 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 651182009434 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 651182009435 S-adenosylmethionine binding site [chemical binding]; other site 651182009436 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182009437 PAS domain; Region: PAS_9; pfam13426 651182009438 putative active site [active] 651182009439 heme pocket [chemical binding]; other site 651182009440 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 651182009441 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 651182009442 Walker A motif; other site 651182009443 ATP binding site [chemical binding]; other site 651182009444 Walker B motif; other site 651182009445 arginine finger; other site 651182009446 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182009447 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 651182009448 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 651182009449 heme-binding residues [chemical binding]; other site 651182009450 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 651182009451 heme-binding residues [chemical binding]; other site 651182009452 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182009453 PAS fold; Region: PAS; pfam00989 651182009454 putative active site [active] 651182009455 heme pocket [chemical binding]; other site 651182009456 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 651182009457 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 651182009458 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182009459 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 651182009460 dimer interface [polypeptide binding]; other site 651182009461 phosphorylation site [posttranslational modification] 651182009462 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 651182009463 ATP binding site [chemical binding]; other site 651182009464 Mg2+ binding site [ion binding]; other site 651182009465 G-X-G motif; other site 651182009466 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 651182009467 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 651182009468 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 651182009469 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 651182009470 B12 binding site [chemical binding]; other site 651182009471 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 651182009472 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 651182009473 substrate binding pocket [chemical binding]; other site 651182009474 dimer interface [polypeptide binding]; other site 651182009475 inhibitor binding site; inhibition site 651182009476 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 651182009477 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 651182009478 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 651182009479 catalytic loop [active] 651182009480 iron binding site [ion binding]; other site 651182009481 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 651182009482 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 651182009483 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 651182009484 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 651182009485 Predicted dehydrogenase [General function prediction only]; Region: COG0579 651182009486 hydroxyglutarate oxidase; Provisional; Region: PRK11728 651182009487 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 651182009488 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 651182009489 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 651182009490 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 651182009491 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 651182009492 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 651182009493 CoA-ligase; Region: Ligase_CoA; pfam00549 651182009494 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 651182009495 CoA binding domain; Region: CoA_binding; smart00881 651182009496 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 651182009497 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 651182009498 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 651182009499 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 651182009500 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 651182009501 Nitrogen regulatory protein P-II; Region: P-II; smart00938 651182009502 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 651182009503 Protein of unknown function (DUF342); Region: DUF342; pfam03961 651182009504 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 651182009505 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 651182009506 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 651182009507 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 651182009508 N-terminal plug; other site 651182009509 ligand-binding site [chemical binding]; other site 651182009510 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 651182009511 MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown; Region: MIT_C; cd02685 651182009512 TIGR02687 family protein; Region: TIGR02687 651182009513 PglZ domain; Region: PglZ; pfam08665 651182009514 Uncharacterized conserved protein [Function unknown]; Region: COG4938 651182009515 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182009516 Walker B; other site 651182009517 D-loop; other site 651182009518 H-loop/switch region; other site 651182009519 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 651182009520 Protein of unknown function DUF262; Region: DUF262; pfam03235 651182009521 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 651182009522 Methyltransferase domain; Region: Methyltransf_26; pfam13659 651182009523 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 651182009524 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 651182009525 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 651182009526 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 651182009527 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 651182009528 putative trimer interface [polypeptide binding]; other site 651182009529 putative CoA binding site [chemical binding]; other site 651182009530 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 651182009531 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 651182009532 FAD binding pocket [chemical binding]; other site 651182009533 FAD binding motif [chemical binding]; other site 651182009534 phosphate binding motif [ion binding]; other site 651182009535 beta-alpha-beta structure motif; other site 651182009536 NAD binding pocket [chemical binding]; other site 651182009537 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 651182009538 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 651182009539 FMN-binding domain; Region: FMN_bind; cl01081 651182009540 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 651182009541 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 651182009542 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 651182009543 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 651182009544 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 651182009545 active site 651182009546 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182009547 Cysteine-rich domain; Region: CCG; pfam02754 651182009548 4Fe-4S binding domain; Region: Fer4; pfam00037 651182009549 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182009550 4Fe-4S binding domain; Region: Fer4; pfam00037 651182009551 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182009552 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182009553 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182009554 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182009555 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 651182009556 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 651182009557 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 651182009558 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 651182009559 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 651182009560 FAD binding pocket [chemical binding]; other site 651182009561 FAD binding motif [chemical binding]; other site 651182009562 phosphate binding motif [ion binding]; other site 651182009563 beta-alpha-beta structure motif; other site 651182009564 NAD binding pocket [chemical binding]; other site 651182009565 Iron coordination center [ion binding]; other site 651182009566 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 651182009567 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182009568 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 651182009569 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182009570 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182009571 4Fe-4S binding domain; Region: Fer4_6; pfam12837 651182009572 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182009573 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182009574 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 651182009575 putative Zn2+ binding site [ion binding]; other site 651182009576 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 651182009577 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 651182009578 catalytic loop [active] 651182009579 iron binding site [ion binding]; other site 651182009580 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 651182009581 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 651182009582 4Fe-4S binding domain; Region: Fer4; pfam00037 651182009583 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 651182009584 [4Fe-4S] binding site [ion binding]; other site 651182009585 molybdopterin cofactor binding site; other site 651182009586 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 651182009587 molybdopterin cofactor binding site; other site 651182009588 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 651182009589 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 651182009590 putative dimer interface [polypeptide binding]; other site 651182009591 [2Fe-2S] cluster binding site [ion binding]; other site 651182009592 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 651182009593 dimer interface [polypeptide binding]; other site 651182009594 [2Fe-2S] cluster binding site [ion binding]; other site 651182009595 putative transposase OrfB; Reviewed; Region: PHA02517 651182009596 HTH-like domain; Region: HTH_21; pfam13276 651182009597 Integrase core domain; Region: rve; pfam00665 651182009598 Integrase core domain; Region: rve_3; pfam13683 651182009599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 651182009600 Transposase; Region: HTH_Tnp_1; cl17663 651182009601 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 651182009602 SLBB domain; Region: SLBB; pfam10531 651182009603 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 651182009604 4Fe-4S binding domain; Region: Fer4; pfam00037 651182009605 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 651182009606 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 651182009607 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 651182009608 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 651182009609 protein binding site [polypeptide binding]; other site 651182009610 LPP20 lipoprotein; Region: LPP20; pfam02169 651182009611 secreted effector protein PipB2; Provisional; Region: PRK15196 651182009612 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 651182009613 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 651182009614 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 651182009615 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 651182009616 Interdomain contacts; other site 651182009617 Cytokine receptor motif; other site 651182009618 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 651182009619 Interdomain contacts; other site 651182009620 Cytokine receptor motif; other site 651182009621 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 651182009622 Interdomain contacts; other site 651182009623 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 651182009624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009625 active site 651182009626 phosphorylation site [posttranslational modification] 651182009627 intermolecular recognition site; other site 651182009628 dimerization interface [polypeptide binding]; other site 651182009629 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 651182009630 DNA binding site [nucleotide binding] 651182009631 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 651182009632 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 651182009633 dimerization interface [polypeptide binding]; other site 651182009634 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 651182009635 dimer interface [polypeptide binding]; other site 651182009636 phosphorylation site [posttranslational modification] 651182009637 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 651182009638 ATP binding site [chemical binding]; other site 651182009639 Mg2+ binding site [ion binding]; other site 651182009640 G-X-G motif; other site 651182009641 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 651182009642 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 651182009643 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 651182009644 protein binding site [polypeptide binding]; other site 651182009645 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 651182009646 protein binding site [polypeptide binding]; other site 651182009647 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 651182009648 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 651182009649 active site 651182009650 dimerization interface [polypeptide binding]; other site 651182009651 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 651182009652 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 651182009653 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 651182009654 GTP/Mg2+ binding site [chemical binding]; other site 651182009655 G4 box; other site 651182009656 G1 box; other site 651182009657 Switch I region; other site 651182009658 G2 box; other site 651182009659 G3 box; other site 651182009660 Switch II region; other site 651182009661 carboxy-terminal protease; Provisional; Region: PRK11186 651182009662 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 651182009663 protein binding site [polypeptide binding]; other site 651182009664 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 651182009665 Catalytic dyad [active] 651182009666 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 651182009667 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 651182009668 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 651182009669 RecX family; Region: RecX; cl00936 651182009670 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 651182009671 active site 651182009672 PilZ domain; Region: PilZ; pfam07238 651182009673 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 651182009674 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 651182009675 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 651182009676 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 651182009677 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 651182009678 SurA N-terminal domain; Region: SurA_N_3; cl07813 651182009679 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 651182009680 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 651182009681 Cache domain; Region: Cache_1; pfam02743 651182009682 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182009683 dimer interface [polypeptide binding]; other site 651182009684 putative CheW interface [polypeptide binding]; other site 651182009685 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182009686 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009687 active site 651182009688 phosphorylation site [posttranslational modification] 651182009689 intermolecular recognition site; other site 651182009690 dimerization interface [polypeptide binding]; other site 651182009691 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 651182009692 Walker A motif; other site 651182009693 ATP binding site [chemical binding]; other site 651182009694 Walker B motif; other site 651182009695 arginine finger; other site 651182009696 Helix-turn-helix domain; Region: HTH_28; pfam13518 651182009697 PAS domain S-box; Region: sensory_box; TIGR00229 651182009698 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182009699 putative active site [active] 651182009700 heme pocket [chemical binding]; other site 651182009701 GAF domain; Region: GAF_2; pfam13185 651182009702 GAF domain; Region: GAF; cl17456 651182009703 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182009704 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 651182009705 dimer interface [polypeptide binding]; other site 651182009706 phosphorylation site [posttranslational modification] 651182009707 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 651182009708 ATP binding site [chemical binding]; other site 651182009709 Mg2+ binding site [ion binding]; other site 651182009710 G-X-G motif; other site 651182009711 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182009712 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009713 active site 651182009714 phosphorylation site [posttranslational modification] 651182009715 intermolecular recognition site; other site 651182009716 dimerization interface [polypeptide binding]; other site 651182009717 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 651182009718 putative CheA interaction surface; other site 651182009719 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 651182009720 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182009721 dimer interface [polypeptide binding]; other site 651182009722 putative CheW interface [polypeptide binding]; other site 651182009723 Sensory domain found in PocR; Region: PocR; pfam10114 651182009724 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 651182009725 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 651182009726 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 651182009727 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 651182009728 dimer interface [polypeptide binding]; other site 651182009729 phosphorylation site [posttranslational modification] 651182009730 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 651182009731 ATP binding site [chemical binding]; other site 651182009732 Mg2+ binding site [ion binding]; other site 651182009733 G-X-G motif; other site 651182009734 Response regulator receiver domain; Region: Response_reg; pfam00072 651182009735 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009736 active site 651182009737 phosphorylation site [posttranslational modification] 651182009738 intermolecular recognition site; other site 651182009739 dimerization interface [polypeptide binding]; other site 651182009740 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 651182009741 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 651182009742 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 651182009743 GAF domain; Region: GAF_3; pfam13492 651182009744 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 651182009745 dimer interface [polypeptide binding]; other site 651182009746 phosphorylation site [posttranslational modification] 651182009747 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 651182009748 ATP binding site [chemical binding]; other site 651182009749 Mg2+ binding site [ion binding]; other site 651182009750 G-X-G motif; other site 651182009751 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182009752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009753 active site 651182009754 phosphorylation site [posttranslational modification] 651182009755 intermolecular recognition site; other site 651182009756 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182009757 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009758 active site 651182009759 phosphorylation site [posttranslational modification] 651182009760 intermolecular recognition site; other site 651182009761 dimerization interface [polypeptide binding]; other site 651182009762 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182009763 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009764 active site 651182009765 phosphorylation site [posttranslational modification] 651182009766 intermolecular recognition site; other site 651182009767 dimerization interface [polypeptide binding]; other site 651182009768 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 651182009769 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182009770 dimer interface [polypeptide binding]; other site 651182009771 phosphorylation site [posttranslational modification] 651182009772 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 651182009773 ATP binding site [chemical binding]; other site 651182009774 Mg2+ binding site [ion binding]; other site 651182009775 G-X-G motif; other site 651182009776 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182009777 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009778 active site 651182009779 phosphorylation site [posttranslational modification] 651182009780 intermolecular recognition site; other site 651182009781 dimerization interface [polypeptide binding]; other site 651182009782 PAS domain S-box; Region: sensory_box; TIGR00229 651182009783 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182009784 putative active site [active] 651182009785 heme pocket [chemical binding]; other site 651182009786 PAS domain S-box; Region: sensory_box; TIGR00229 651182009787 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182009788 putative active site [active] 651182009789 heme pocket [chemical binding]; other site 651182009790 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182009791 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 651182009792 dimer interface [polypeptide binding]; other site 651182009793 phosphorylation site [posttranslational modification] 651182009794 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 651182009795 ATP binding site [chemical binding]; other site 651182009796 Mg2+ binding site [ion binding]; other site 651182009797 G-X-G motif; other site 651182009798 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182009799 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009800 active site 651182009801 phosphorylation site [posttranslational modification] 651182009802 intermolecular recognition site; other site 651182009803 dimerization interface [polypeptide binding]; other site 651182009804 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 651182009805 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 651182009806 [4Fe-4S] binding site [ion binding]; other site 651182009807 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 651182009808 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 651182009809 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 651182009810 molybdopterin cofactor binding site; other site 651182009811 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 651182009812 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 651182009813 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 651182009814 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 651182009815 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 651182009816 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 651182009817 dimer interface [polypeptide binding]; other site 651182009818 catalytic triad [active] 651182009819 Methylamine utilisation protein MauE; Region: MauE; pfam07291 651182009820 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 651182009821 active site residue [active] 651182009822 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 651182009823 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 651182009824 catalytic residues [active] 651182009825 Response regulator receiver domain; Region: Response_reg; pfam00072 651182009826 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009827 active site 651182009828 phosphorylation site [posttranslational modification] 651182009829 intermolecular recognition site; other site 651182009830 dimerization interface [polypeptide binding]; other site 651182009831 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 651182009832 anti sigma factor interaction site; other site 651182009833 regulatory phosphorylation site [posttranslational modification]; other site 651182009834 HAMP domain; Region: HAMP; pfam00672 651182009835 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182009836 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182009837 putative active site [active] 651182009838 heme pocket [chemical binding]; other site 651182009839 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 651182009840 dimer interface [polypeptide binding]; other site 651182009841 phosphorylation site [posttranslational modification] 651182009842 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 651182009843 ATP binding site [chemical binding]; other site 651182009844 Mg2+ binding site [ion binding]; other site 651182009845 G-X-G motif; other site 651182009846 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 651182009847 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 651182009848 putative ligand binding site [chemical binding]; other site 651182009849 Bacterial transcriptional activator domain; Region: BTAD; smart01043 651182009850 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 651182009851 TPR motif; other site 651182009852 binding surface 651182009853 Response regulator receiver domain; Region: Response_reg; pfam00072 651182009854 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009855 active site 651182009856 phosphorylation site [posttranslational modification] 651182009857 intermolecular recognition site; other site 651182009858 dimerization interface [polypeptide binding]; other site 651182009859 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 651182009860 anti sigma factor interaction site; other site 651182009861 regulatory phosphorylation site [posttranslational modification]; other site 651182009862 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 651182009863 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 651182009864 FecR protein; Region: FecR; pfam04773 651182009865 CHASE2 domain; Region: CHASE2; pfam05226 651182009866 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 651182009867 cyclase homology domain; Region: CHD; cd07302 651182009868 nucleotidyl binding site; other site 651182009869 metal binding site [ion binding]; metal-binding site 651182009870 dimer interface [polypeptide binding]; other site 651182009871 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 651182009872 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 651182009873 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 651182009874 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 651182009875 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 651182009876 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 651182009877 Family of unknown function (DUF694); Region: DUF694; pfam05107 651182009878 CRISPR-associated protein Cas5, subtype I-B/HMARI; Region: cas_Cas5h; TIGR02592 651182009879 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 651182009880 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 651182009881 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 651182009882 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 651182009883 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 651182009884 ATP-dependent helicase HepA; Validated; Region: PRK04914 651182009885 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 651182009886 ATP binding site [chemical binding]; other site 651182009887 putative Mg++ binding site [ion binding]; other site 651182009888 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 651182009889 nucleotide binding region [chemical binding]; other site 651182009890 ATP-binding site [chemical binding]; other site 651182009891 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 651182009892 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 651182009893 TPP-binding site [chemical binding]; other site 651182009894 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 651182009895 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 651182009896 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 651182009897 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 651182009898 dimer interface [polypeptide binding]; other site 651182009899 PYR/PP interface [polypeptide binding]; other site 651182009900 TPP binding site [chemical binding]; other site 651182009901 substrate binding site [chemical binding]; other site 651182009902 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 651182009903 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 651182009904 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 651182009905 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182009906 4Fe-4S binding domain; Region: Fer4; pfam00037 651182009907 Uncharacterized conserved protein [Function unknown]; Region: COG1284 651182009908 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 651182009909 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 651182009910 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 651182009911 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 651182009912 TPR motif; other site 651182009913 TPR repeat; Region: TPR_11; pfam13414 651182009914 binding surface 651182009915 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 651182009916 binding surface 651182009917 TPR motif; other site 651182009918 TPR repeat; Region: TPR_11; pfam13414 651182009919 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 651182009920 binding surface 651182009921 TPR motif; other site 651182009922 TPR repeat; Region: TPR_11; pfam13414 651182009923 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 651182009924 TPR motif; other site 651182009925 binding surface 651182009926 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 651182009927 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 651182009928 dimer interface [polypeptide binding]; other site 651182009929 conserved gate region; other site 651182009930 putative PBP binding loops; other site 651182009931 ABC-ATPase subunit interface; other site 651182009932 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 651182009933 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 651182009934 dimer interface [polypeptide binding]; other site 651182009935 conserved gate region; other site 651182009936 putative PBP binding loops; other site 651182009937 ABC-ATPase subunit interface; other site 651182009938 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 651182009939 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 651182009940 motif 1; other site 651182009941 active site 651182009942 motif 2; other site 651182009943 motif 3; other site 651182009944 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 651182009945 DHHA1 domain; Region: DHHA1; pfam02272 651182009946 recombinase A; Provisional; Region: recA; PRK09354 651182009947 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 651182009948 hexamer interface [polypeptide binding]; other site 651182009949 Walker A motif; other site 651182009950 ATP binding site [chemical binding]; other site 651182009951 Walker B motif; other site 651182009952 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 651182009953 tetramer interfaces [polypeptide binding]; other site 651182009954 binuclear metal-binding site [ion binding]; other site 651182009955 Protein of unknown function DUF111; Region: DUF111; pfam01969 651182009956 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 651182009957 peptidase T-like protein; Region: PepT-like; TIGR01883 651182009958 metal binding site [ion binding]; metal-binding site 651182009959 putative dimer interface [polypeptide binding]; other site 651182009960 Sensory domain found in PocR; Region: PocR; pfam10114 651182009961 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 651182009962 PAS domain; Region: PAS; smart00091 651182009963 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182009964 putative active site [active] 651182009965 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 651182009966 dimer interface [polypeptide binding]; other site 651182009967 phosphorylation site [posttranslational modification] 651182009968 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 651182009969 ATP binding site [chemical binding]; other site 651182009970 Mg2+ binding site [ion binding]; other site 651182009971 G-X-G motif; other site 651182009972 SprT-like family; Region: SprT-like; pfam10263 651182009973 fumarate hydratase; Provisional; Region: PRK15389 651182009974 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 651182009975 Fumarase C-terminus; Region: Fumerase_C; pfam05683 651182009976 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 651182009977 Malic enzyme, N-terminal domain; Region: malic; pfam00390 651182009978 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 651182009979 putative NAD(P) binding site [chemical binding]; other site 651182009980 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 651182009981 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 651182009982 transmembrane helices; other site 651182009983 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 651182009984 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 651182009985 dimerization interface [polypeptide binding]; other site 651182009986 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182009987 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182009988 putative active site [active] 651182009989 heme pocket [chemical binding]; other site 651182009990 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 651182009991 dimer interface [polypeptide binding]; other site 651182009992 phosphorylation site [posttranslational modification] 651182009993 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 651182009994 ATP binding site [chemical binding]; other site 651182009995 G-X-G motif; other site 651182009996 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182009997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182009998 active site 651182009999 phosphorylation site [posttranslational modification] 651182010000 intermolecular recognition site; other site 651182010001 dimerization interface [polypeptide binding]; other site 651182010002 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 651182010003 Walker A motif; other site 651182010004 ATP binding site [chemical binding]; other site 651182010005 Walker B motif; other site 651182010006 arginine finger; other site 651182010007 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182010008 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 651182010009 ASC-1 homology domain, ASC-1-like subfamily. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain...; Region: ASCH_ASC-1_like; cd06554 651182010010 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 651182010011 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 651182010012 catalytic motif [active] 651182010013 Catalytic residue [active] 651182010014 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 651182010015 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 651182010016 active site 651182010017 catalytic residues [active] 651182010018 DNA binding site [nucleotide binding] 651182010019 Int/Topo IB signature motif; other site 651182010020 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 651182010021 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 651182010022 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 651182010023 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 651182010024 active site 651182010025 trimerization site [polypeptide binding]; other site 651182010026 Peptidase family M48; Region: Peptidase_M48; cl12018 651182010027 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 651182010028 TPR repeat; Region: TPR_11; pfam13414 651182010029 binding surface 651182010030 TPR motif; other site 651182010031 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 651182010032 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 651182010033 dimer interface [polypeptide binding]; other site 651182010034 ADP-ribose binding site [chemical binding]; other site 651182010035 active site 651182010036 nudix motif; other site 651182010037 metal binding site [ion binding]; metal-binding site 651182010038 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 651182010039 ADP-ribose binding site [chemical binding]; other site 651182010040 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 651182010041 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 651182010042 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 651182010043 Peptidase family M23; Region: Peptidase_M23; pfam01551 651182010044 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 651182010045 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 651182010046 ATP binding site [chemical binding]; other site 651182010047 putative Mg++ binding site [ion binding]; other site 651182010048 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 651182010049 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 651182010050 nucleotide binding region [chemical binding]; other site 651182010051 ATP-binding site [chemical binding]; other site 651182010052 SEC-C motif; Region: SEC-C; pfam02810 651182010053 Uncharacterized conserved protein [Function unknown]; Region: COG2127 651182010054 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 651182010055 Clp amino terminal domain; Region: Clp_N; pfam02861 651182010056 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 651182010057 Walker A motif; other site 651182010058 ATP binding site [chemical binding]; other site 651182010059 Walker B motif; other site 651182010060 arginine finger; other site 651182010061 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 651182010062 Walker A motif; other site 651182010063 ATP binding site [chemical binding]; other site 651182010064 Walker B motif; other site 651182010065 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 651182010066 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 651182010067 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 651182010068 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 651182010069 putative FMN binding site [chemical binding]; other site 651182010070 HDOD domain; Region: HDOD; pfam08668 651182010071 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182010072 Zn2+ binding site [ion binding]; other site 651182010073 Mg2+ binding site [ion binding]; other site 651182010074 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 651182010075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182010076 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 651182010077 NAD(P) binding site [chemical binding]; other site 651182010078 active site 651182010079 Predicted phosphoesterase (MutT family) [General function prediction only]; Region: COG4112 651182010080 Trp repressor protein; Region: Trp_repressor; cl17266 651182010081 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 651182010082 AMMECR1; Region: AMMECR1; pfam01871 651182010083 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 651182010084 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 651182010085 hexamer interface [polypeptide binding]; other site 651182010086 ligand binding site [chemical binding]; other site 651182010087 putative active site [active] 651182010088 NAD(P) binding site [chemical binding]; other site 651182010089 adenylosuccinate lyase; Provisional; Region: PRK09285 651182010090 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 651182010091 tetramer interface [polypeptide binding]; other site 651182010092 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 651182010093 IHF dimer interface [polypeptide binding]; other site 651182010094 IHF - DNA interface [nucleotide binding]; other site 651182010095 Peptidase family M48; Region: Peptidase_M48; pfam01435 651182010096 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 651182010097 active site 651182010098 metal binding site [ion binding]; metal-binding site 651182010099 homotetramer interface [polypeptide binding]; other site 651182010100 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 651182010101 HSP70 interaction site [polypeptide binding]; other site 651182010102 Protein of unknown function DUF89; Region: DUF89; cl15397 651182010103 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 651182010104 active site 651182010105 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 651182010106 nucleoside/Zn binding site; other site 651182010107 dimer interface [polypeptide binding]; other site 651182010108 catalytic motif [active] 651182010109 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 651182010110 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 651182010111 GDP-binding site [chemical binding]; other site 651182010112 ACT binding site; other site 651182010113 IMP binding site; other site 651182010114 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 651182010115 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 651182010116 Walker A motif; other site 651182010117 ATP binding site [chemical binding]; other site 651182010118 Walker B motif; other site 651182010119 Integrase core domain; Region: rve; pfam00665 651182010120 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 651182010121 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 651182010122 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 651182010123 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 651182010124 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 651182010125 tandem repeat interface [polypeptide binding]; other site 651182010126 oligomer interface [polypeptide binding]; other site 651182010127 active site residues [active] 651182010128 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 651182010129 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 651182010130 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 651182010131 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182010132 putative active site [active] 651182010133 putative NTP binding site [chemical binding]; other site 651182010134 putative nucleic acid binding site [nucleotide binding]; other site 651182010135 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182010136 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 651182010137 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 651182010138 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 651182010139 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 651182010140 sequence-specific DNA binding site [nucleotide binding]; other site 651182010141 salt bridge; other site 651182010142 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 651182010143 Prophage antirepressor [Transcription]; Region: COG3617 651182010144 BRO family, N-terminal domain; Region: Bro-N; smart01040 651182010145 Helix-turn-helix domain; Region: HTH_17; pfam12728 651182010146 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 651182010147 DNA primase, catalytic core; Region: dnaG; TIGR01391 651182010148 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; pfam08273 651182010149 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 651182010150 active site 651182010151 metal binding site [ion binding]; metal-binding site 651182010152 interdomain interaction site; other site 651182010153 D5 N terminal like; Region: D5_N; pfam08706 651182010154 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 651182010155 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 651182010156 hypothetical protein; Validated; Region: PRK07078 651182010157 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 651182010158 non-specific DNA binding site [nucleotide binding]; other site 651182010159 salt bridge; other site 651182010160 sequence-specific DNA binding site [nucleotide binding]; other site 651182010161 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 651182010162 non-specific DNA binding site [nucleotide binding]; other site 651182010163 salt bridge; other site 651182010164 sequence-specific DNA binding site [nucleotide binding]; other site 651182010165 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 651182010166 PAS domain; Region: PAS_9; pfam13426 651182010167 putative active site [active] 651182010168 heme pocket [chemical binding]; other site 651182010169 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182010170 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182010171 metal binding site [ion binding]; metal-binding site 651182010172 active site 651182010173 I-site; other site 651182010174 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 651182010175 active site 651182010176 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 651182010177 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182010178 putative active site [active] 651182010179 putative NTP binding site [chemical binding]; other site 651182010180 putative nucleic acid binding site [nucleotide binding]; other site 651182010181 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182010182 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 651182010183 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 651182010184 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182010185 putative active site [active] 651182010186 putative NTP binding site [chemical binding]; other site 651182010187 putative nucleic acid binding site [nucleotide binding]; other site 651182010188 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182010189 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 651182010190 integron integrase; Region: integrase_gron; TIGR02249 651182010191 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 651182010192 active site 651182010193 DNA binding site [nucleotide binding] 651182010194 Int/Topo IB signature motif; other site 651182010195 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 651182010196 Putative transposase; Region: Y2_Tnp; pfam04986 651182010197 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 651182010198 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182010199 putative active site [active] 651182010200 putative NTP binding site [chemical binding]; other site 651182010201 putative nucleic acid binding site [nucleotide binding]; other site 651182010202 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182010203 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 651182010204 non-specific DNA binding site [nucleotide binding]; other site 651182010205 salt bridge; other site 651182010206 sequence-specific DNA binding site [nucleotide binding]; other site 651182010207 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 651182010208 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182010209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182010210 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182010211 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182010212 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182010213 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182010214 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182010215 Protein of unknown function (DUF2806); Region: DUF2806; pfam10987 651182010216 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182010217 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182010218 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182010219 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182010220 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182010221 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182010222 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182010223 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 651182010224 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 651182010225 putative active site [active] 651182010226 putative NTP binding site [chemical binding]; other site 651182010227 putative nucleic acid binding site [nucleotide binding]; other site 651182010228 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 651182010229 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 651182010230 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 651182010231 non-specific DNA binding site [nucleotide binding]; other site 651182010232 salt bridge; other site 651182010233 sequence-specific DNA binding site [nucleotide binding]; other site 651182010234 LysE type translocator; Region: LysE; cl00565 651182010235 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 651182010236 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 651182010237 salt bridge; other site 651182010238 non-specific DNA binding site [nucleotide binding]; other site 651182010239 sequence-specific DNA binding site [nucleotide binding]; other site 651182010240 integrase; Provisional; Region: int; PHA02601 651182010241 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 651182010242 active site 651182010243 catalytic residues [active] 651182010244 DNA binding site [nucleotide binding] 651182010245 Int/Topo IB signature motif; other site 651182010246 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 651182010247 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 651182010248 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 651182010249 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 651182010250 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 651182010251 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 651182010252 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 651182010253 Predicted transporter (DUF2162); Region: DUF2162; cl01990 651182010254 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 651182010255 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 651182010256 N-terminal plug; other site 651182010257 ligand-binding site [chemical binding]; other site 651182010258 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 651182010259 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 651182010260 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 651182010261 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 651182010262 GTP1/OBG; Region: GTP1_OBG; pfam01018 651182010263 Obg GTPase; Region: Obg; cd01898 651182010264 G1 box; other site 651182010265 GTP/Mg2+ binding site [chemical binding]; other site 651182010266 Switch I region; other site 651182010267 G2 box; other site 651182010268 G3 box; other site 651182010269 Switch II region; other site 651182010270 G4 box; other site 651182010271 G5 box; other site 651182010272 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 651182010273 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 651182010274 active site 651182010275 (T/H)XGH motif; other site 651182010276 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 651182010277 phosphoglyceromutase; Provisional; Region: PRK05434 651182010278 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 651182010279 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 651182010280 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 651182010281 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 651182010282 active site 651182010283 catalytic residues [active] 651182010284 metal binding site [ion binding]; metal-binding site 651182010285 homodimer binding site [polypeptide binding]; other site 651182010286 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 651182010287 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 651182010288 carboxyltransferase (CT) interaction site; other site 651182010289 biotinylation site [posttranslational modification]; other site 651182010290 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 651182010291 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 651182010292 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 651182010293 Ubiquitin-like proteins; Region: UBQ; cl00155 651182010294 charged pocket; other site 651182010295 hydrophobic patch; other site 651182010296 Response regulator receiver domain; Region: Response_reg; pfam00072 651182010297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182010298 active site 651182010299 phosphorylation site [posttranslational modification] 651182010300 intermolecular recognition site; other site 651182010301 dimerization interface [polypeptide binding]; other site 651182010302 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182010303 Response regulator receiver domain; Region: Response_reg; pfam00072 651182010304 active site 651182010305 phosphorylation site [posttranslational modification] 651182010306 intermolecular recognition site; other site 651182010307 dimerization interface [polypeptide binding]; other site 651182010308 Protein of unknown function (DUF342); Region: DUF342; pfam03961 651182010309 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 651182010310 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 651182010311 active site 651182010312 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 651182010313 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 651182010314 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 651182010315 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 651182010316 dimer interface [polypeptide binding]; other site 651182010317 PYR/PP interface [polypeptide binding]; other site 651182010318 TPP binding site [chemical binding]; other site 651182010319 substrate binding site [chemical binding]; other site 651182010320 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 651182010321 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 651182010322 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 651182010323 TPP-binding site [chemical binding]; other site 651182010324 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 651182010325 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 651182010326 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182010327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182010328 active site 651182010329 phosphorylation site [posttranslational modification] 651182010330 intermolecular recognition site; other site 651182010331 dimerization interface [polypeptide binding]; other site 651182010332 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 651182010333 Walker A motif; other site 651182010334 ATP binding site [chemical binding]; other site 651182010335 Walker B motif; other site 651182010336 arginine finger; other site 651182010337 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182010338 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 651182010339 dimer interface [polypeptide binding]; other site 651182010340 phosphorylation site [posttranslational modification] 651182010341 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 651182010342 ATP binding site [chemical binding]; other site 651182010343 Mg2+ binding site [ion binding]; other site 651182010344 G-X-G motif; other site 651182010345 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 651182010346 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 651182010347 tandem repeat interface [polypeptide binding]; other site 651182010348 oligomer interface [polypeptide binding]; other site 651182010349 active site residues [active] 651182010350 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 651182010351 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 651182010352 RNA binding site [nucleotide binding]; other site 651182010353 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 651182010354 RNA binding site [nucleotide binding]; other site 651182010355 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 651182010356 RNA binding site [nucleotide binding]; other site 651182010357 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 651182010358 RNA binding site [nucleotide binding]; other site 651182010359 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 651182010360 RNA binding site [nucleotide binding]; other site 651182010361 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 651182010362 RNA binding site [nucleotide binding]; other site 651182010363 cytidylate kinase; Provisional; Region: cmk; PRK00023 651182010364 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 651182010365 CMP-binding site; other site 651182010366 The sites determining sugar specificity; other site 651182010367 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 651182010368 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 651182010369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182010370 homodimer interface [polypeptide binding]; other site 651182010371 catalytic residue [active] 651182010372 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 651182010373 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 651182010374 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 651182010375 putative acyl-acceptor binding pocket; other site 651182010376 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 651182010377 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 651182010378 Substrate binding site; other site 651182010379 metal-binding site 651182010380 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 651182010381 Phosphotransferase enzyme family; Region: APH; pfam01636 651182010382 Probable dihydrodipicolinate reductase; Region: PLN02775 651182010383 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 651182010384 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 651182010385 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 651182010386 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 651182010387 HSP70 interaction site [polypeptide binding]; other site 651182010388 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 651182010389 Putative Fe-S cluster; Region: FeS; cl17515 651182010390 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 651182010391 acetyl-CoA synthetase; Provisional; Region: PRK00174 651182010392 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182010393 acyl-activating enzyme (AAE) consensus motif; other site 651182010394 AMP binding site [chemical binding]; other site 651182010395 active site 651182010396 CoA binding site [chemical binding]; other site 651182010397 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 651182010398 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 651182010399 acyl-activating enzyme (AAE) consensus motif; other site 651182010400 putative AMP binding site [chemical binding]; other site 651182010401 putative active site [active] 651182010402 putative CoA binding site [chemical binding]; other site 651182010403 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 651182010404 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 651182010405 Na binding site [ion binding]; other site 651182010406 PAS fold; Region: PAS; pfam00989 651182010407 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 651182010408 putative active site [active] 651182010409 heme pocket [chemical binding]; other site 651182010410 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 651182010411 active site 651182010412 catalytic site [active] 651182010413 substrate binding site [chemical binding]; other site 651182010414 LemA family; Region: LemA; cl00742 651182010415 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 651182010416 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 651182010417 ligand binding site [chemical binding]; other site 651182010418 flexible hinge region; other site 651182010419 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 651182010420 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 651182010421 metal binding triad; other site 651182010422 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 651182010423 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 651182010424 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 651182010425 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 651182010426 ligand binding site [chemical binding]; other site 651182010427 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 651182010428 Peptidase family M48; Region: Peptidase_M48; pfam01435 651182010429 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 651182010430 binding surface 651182010431 TPR repeat; Region: TPR_11; pfam13414 651182010432 TPR motif; other site 651182010433 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 651182010434 MviN-like protein; Region: MVIN; pfam03023 651182010435 NAD-dependent deacetylase; Provisional; Region: PRK00481 651182010436 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 651182010437 NAD+ binding site [chemical binding]; other site 651182010438 substrate binding site [chemical binding]; other site 651182010439 Zn binding site [ion binding]; other site 651182010440 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 651182010441 Methyltransferase domain; Region: Methyltransf_31; pfam13847 651182010442 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 651182010443 S-adenosylmethionine binding site [chemical binding]; other site 651182010444 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 651182010445 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182010446 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182010447 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182010448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182010449 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182010450 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182010451 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182010452 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 651182010453 catalytic core [active] 651182010454 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 651182010455 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 651182010456 MarR family; Region: MarR_2; pfam12802 651182010457 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 651182010458 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 651182010459 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 651182010460 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 651182010461 putative PBP binding regions; other site 651182010462 ABC-ATPase subunit interface; other site 651182010463 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 651182010464 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 651182010465 Walker A/P-loop; other site 651182010466 ATP binding site [chemical binding]; other site 651182010467 Q-loop/lid; other site 651182010468 ABC transporter signature motif; other site 651182010469 Walker B; other site 651182010470 D-loop; other site 651182010471 H-loop/switch region; other site 651182010472 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 651182010473 NMT1-like family; Region: NMT1_2; pfam13379 651182010474 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 651182010475 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 651182010476 PhnA protein; Region: PhnA; pfam03831 651182010477 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 651182010478 Flagellar protein YcgR; Region: YcgR_2; pfam12945 651182010479 PilZ domain; Region: PilZ; pfam07238 651182010480 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 651182010481 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 651182010482 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 651182010483 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 651182010484 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182010485 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182010486 metal binding site [ion binding]; metal-binding site 651182010487 active site 651182010488 I-site; other site 651182010489 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 651182010490 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 651182010491 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 651182010492 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 651182010493 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 651182010494 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 651182010495 Walker A/P-loop; other site 651182010496 ATP binding site [chemical binding]; other site 651182010497 Q-loop/lid; other site 651182010498 ABC transporter signature motif; other site 651182010499 Walker B; other site 651182010500 D-loop; other site 651182010501 H-loop/switch region; other site 651182010502 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 651182010503 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 651182010504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182010505 Walker A/P-loop; other site 651182010506 ATP binding site [chemical binding]; other site 651182010507 Q-loop/lid; other site 651182010508 ABC transporter signature motif; other site 651182010509 Walker B; other site 651182010510 D-loop; other site 651182010511 H-loop/switch region; other site 651182010512 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 651182010513 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 651182010514 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 651182010515 active site 651182010516 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 651182010517 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 651182010518 Walker A/P-loop; other site 651182010519 ATP binding site [chemical binding]; other site 651182010520 Q-loop/lid; other site 651182010521 ABC transporter signature motif; other site 651182010522 Walker B; other site 651182010523 D-loop; other site 651182010524 H-loop/switch region; other site 651182010525 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 651182010526 Tumour suppressor, Mitostatin; Region: Trichoplein; pfam13868 651182010527 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 651182010528 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 651182010529 dimer interface [polypeptide binding]; other site 651182010530 conserved gate region; other site 651182010531 putative PBP binding loops; other site 651182010532 ABC-ATPase subunit interface; other site 651182010533 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 651182010534 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 651182010535 AP (apurinic/apyrimidinic) site pocket; other site 651182010536 DNA interaction; other site 651182010537 Metal-binding active site; metal-binding site 651182010538 Cache domain; Region: Cache_1; pfam02743 651182010539 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182010540 dimer interface [polypeptide binding]; other site 651182010541 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 651182010542 putative CheW interface [polypeptide binding]; other site 651182010543 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 651182010544 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 651182010545 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 651182010546 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 651182010547 active site 651182010548 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 651182010549 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182010550 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182010551 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182010552 metal binding site [ion binding]; metal-binding site 651182010553 active site 651182010554 I-site; other site 651182010555 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 651182010556 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 651182010557 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 651182010558 substrate binding pocket [chemical binding]; other site 651182010559 membrane-bound complex binding site; other site 651182010560 hinge residues; other site 651182010561 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 651182010562 dimer interface [polypeptide binding]; other site 651182010563 phosphorylation site [posttranslational modification] 651182010564 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 651182010565 ATP binding site [chemical binding]; other site 651182010566 Mg2+ binding site [ion binding]; other site 651182010567 G-X-G motif; other site 651182010568 Response regulator receiver domain; Region: Response_reg; pfam00072 651182010569 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182010570 active site 651182010571 phosphorylation site [posttranslational modification] 651182010572 intermolecular recognition site; other site 651182010573 dimerization interface [polypeptide binding]; other site 651182010574 FOG: CBS domain [General function prediction only]; Region: COG0517 651182010575 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 651182010576 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 651182010577 dimer interface [polypeptide binding]; other site 651182010578 phosphorylation site [posttranslational modification] 651182010579 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 651182010580 ATP binding site [chemical binding]; other site 651182010581 Mg2+ binding site [ion binding]; other site 651182010582 G-X-G motif; other site 651182010583 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 651182010584 PhoU domain; Region: PhoU; pfam01895 651182010585 PhoU domain; Region: PhoU; pfam01895 651182010586 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 651182010587 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 651182010588 Walker A/P-loop; other site 651182010589 ATP binding site [chemical binding]; other site 651182010590 Q-loop/lid; other site 651182010591 ABC transporter signature motif; other site 651182010592 Walker B; other site 651182010593 D-loop; other site 651182010594 H-loop/switch region; other site 651182010595 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 651182010596 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 651182010597 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 651182010598 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 651182010599 dimer interface [polypeptide binding]; other site 651182010600 conserved gate region; other site 651182010601 putative PBP binding loops; other site 651182010602 ABC-ATPase subunit interface; other site 651182010603 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 651182010604 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 651182010605 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 651182010606 dimer interface [polypeptide binding]; other site 651182010607 conserved gate region; other site 651182010608 putative PBP binding loops; other site 651182010609 ABC-ATPase subunit interface; other site 651182010610 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 651182010611 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 651182010612 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 651182010613 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 651182010614 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 651182010615 non-specific DNA binding site [nucleotide binding]; other site 651182010616 salt bridge; other site 651182010617 sequence-specific DNA binding site [nucleotide binding]; other site 651182010618 Cupin domain; Region: Cupin_2; pfam07883 651182010619 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 651182010620 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 651182010621 tetramer interface [polypeptide binding]; other site 651182010622 active site 651182010623 Mg2+/Mn2+ binding site [ion binding]; other site 651182010624 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 651182010625 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 651182010626 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 651182010627 substrate binding site [chemical binding]; other site 651182010628 ligand binding site [chemical binding]; other site 651182010629 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 651182010630 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 651182010631 substrate binding site [chemical binding]; other site 651182010632 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 651182010633 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 651182010634 dimer interface [polypeptide binding]; other site 651182010635 substrate binding site [chemical binding]; other site 651182010636 metal binding site [ion binding]; metal-binding site 651182010637 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 651182010638 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 651182010639 glycogen binding site [chemical binding]; other site 651182010640 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 651182010641 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 651182010642 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 651182010643 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 651182010644 putative acyl-acceptor binding pocket; other site 651182010645 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 651182010646 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 651182010647 active site 651182010648 4Fe-4S binding domain; Region: Fer4; pfam00037 651182010649 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 651182010650 4Fe-4S binding domain; Region: Fer4; pfam00037 651182010651 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 651182010652 phosphate binding site [ion binding]; other site 651182010653 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 651182010654 domain_subunit interface; other site 651182010655 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 651182010656 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182010657 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 651182010658 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 651182010659 LDH/MDH dimer interface [polypeptide binding]; other site 651182010660 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 651182010661 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 651182010662 GAF domain; Region: GAF; pfam01590 651182010663 ANTAR domain; Region: ANTAR; pfam03861 651182010664 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182010665 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 651182010666 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 651182010667 FAD binding site [chemical binding]; other site 651182010668 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 651182010669 phosphate binding site [ion binding]; other site 651182010670 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 651182010671 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 651182010672 active site 651182010673 FMN binding site [chemical binding]; other site 651182010674 substrate binding site [chemical binding]; other site 651182010675 3Fe-4S cluster binding site [ion binding]; other site 651182010676 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 651182010677 active site 651182010678 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 651182010679 domain_subunit interface; other site 651182010680 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 651182010681 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 651182010682 active site 651182010683 FMN binding site [chemical binding]; other site 651182010684 substrate binding site [chemical binding]; other site 651182010685 putative catalytic residue [active] 651182010686 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182010687 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182010688 active site 651182010689 phosphorylation site [posttranslational modification] 651182010690 intermolecular recognition site; other site 651182010691 dimerization interface [polypeptide binding]; other site 651182010692 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 651182010693 Chemotaxis phosphatase CheX; Region: CheX; cl15816 651182010694 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 651182010695 dimer interface [polypeptide binding]; other site 651182010696 phosphorylation site [posttranslational modification] 651182010697 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182010698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182010699 active site 651182010700 phosphorylation site [posttranslational modification] 651182010701 intermolecular recognition site; other site 651182010702 dimerization interface [polypeptide binding]; other site 651182010703 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182010704 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182010705 metal binding site [ion binding]; metal-binding site 651182010706 active site 651182010707 I-site; other site 651182010708 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 651182010709 putative binding surface; other site 651182010710 active site 651182010711 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 651182010712 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 651182010713 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 651182010714 ATP binding site [chemical binding]; other site 651182010715 Mg2+ binding site [ion binding]; other site 651182010716 G-X-G motif; other site 651182010717 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 651182010718 Cache domain; Region: Cache_1; pfam02743 651182010719 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 651182010720 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182010721 dimer interface [polypeptide binding]; other site 651182010722 putative CheW interface [polypeptide binding]; other site 651182010723 PBP superfamily domain; Region: PBP_like_2; cl17296 651182010724 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 651182010725 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 651182010726 dimer interface [polypeptide binding]; other site 651182010727 conserved gate region; other site 651182010728 putative PBP binding loops; other site 651182010729 ABC-ATPase subunit interface; other site 651182010730 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 651182010731 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 651182010732 dimer interface [polypeptide binding]; other site 651182010733 conserved gate region; other site 651182010734 putative PBP binding loops; other site 651182010735 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 651182010736 ABC-ATPase subunit interface; other site 651182010737 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 651182010738 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 651182010739 Walker A/P-loop; other site 651182010740 ATP binding site [chemical binding]; other site 651182010741 Q-loop/lid; other site 651182010742 ABC transporter signature motif; other site 651182010743 Walker B; other site 651182010744 D-loop; other site 651182010745 H-loop/switch region; other site 651182010746 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 651182010747 PhoU domain; Region: PhoU; pfam01895 651182010748 PhoU domain; Region: PhoU; pfam01895 651182010749 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 651182010750 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182010751 active site 651182010752 phosphorylation site [posttranslational modification] 651182010753 intermolecular recognition site; other site 651182010754 dimerization interface [polypeptide binding]; other site 651182010755 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 651182010756 DNA binding site [nucleotide binding] 651182010757 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 651182010758 dimerization interface [polypeptide binding]; other site 651182010759 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 651182010760 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182010761 putative active site [active] 651182010762 heme pocket [chemical binding]; other site 651182010763 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 651182010764 dimer interface [polypeptide binding]; other site 651182010765 phosphorylation site [posttranslational modification] 651182010766 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 651182010767 ATP binding site [chemical binding]; other site 651182010768 Mg2+ binding site [ion binding]; other site 651182010769 G-X-G motif; other site 651182010770 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 651182010771 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 651182010772 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 651182010773 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 651182010774 Response regulator receiver domain; Region: Response_reg; pfam00072 651182010775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182010776 active site 651182010777 phosphorylation site [posttranslational modification] 651182010778 intermolecular recognition site; other site 651182010779 dimerization interface [polypeptide binding]; other site 651182010780 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182010781 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182010782 metal binding site [ion binding]; metal-binding site 651182010783 active site 651182010784 I-site; other site 651182010785 HAMP domain; Region: HAMP; pfam00672 651182010786 PAS domain S-box; Region: sensory_box; TIGR00229 651182010787 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 651182010788 dimer interface [polypeptide binding]; other site 651182010789 phosphorylation site [posttranslational modification] 651182010790 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 651182010791 ATP binding site [chemical binding]; other site 651182010792 Mg2+ binding site [ion binding]; other site 651182010793 G-X-G motif; other site 651182010794 Response regulator receiver domain; Region: Response_reg; pfam00072 651182010795 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182010796 active site 651182010797 phosphorylation site [posttranslational modification] 651182010798 intermolecular recognition site; other site 651182010799 dimerization interface [polypeptide binding]; other site 651182010800 Response regulator receiver domain; Region: Response_reg; pfam00072 651182010801 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182010802 active site 651182010803 phosphorylation site [posttranslational modification] 651182010804 intermolecular recognition site; other site 651182010805 dimerization interface [polypeptide binding]; other site 651182010806 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 651182010807 putative binding surface; other site 651182010808 active site 651182010809 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 651182010810 RNA/DNA hybrid binding site [nucleotide binding]; other site 651182010811 active site 651182010812 HAMP domain; Region: HAMP; pfam00672 651182010813 dimerization interface [polypeptide binding]; other site 651182010814 PAS domain S-box; Region: sensory_box; TIGR00229 651182010815 PAS domain; Region: PAS; smart00091 651182010816 PAS domain; Region: PAS_9; pfam13426 651182010817 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 651182010818 dimer interface [polypeptide binding]; other site 651182010819 phosphorylation site [posttranslational modification] 651182010820 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 651182010821 ATP binding site [chemical binding]; other site 651182010822 Mg2+ binding site [ion binding]; other site 651182010823 G-X-G motif; other site 651182010824 Response regulator receiver domain; Region: Response_reg; pfam00072 651182010825 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182010826 active site 651182010827 phosphorylation site [posttranslational modification] 651182010828 intermolecular recognition site; other site 651182010829 dimerization interface [polypeptide binding]; other site 651182010830 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 651182010831 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 651182010832 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 651182010833 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182010834 dimer interface [polypeptide binding]; other site 651182010835 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 651182010836 putative CheW interface [polypeptide binding]; other site 651182010837 Response regulator receiver domain; Region: Response_reg; pfam00072 651182010838 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182010839 active site 651182010840 phosphorylation site [posttranslational modification] 651182010841 intermolecular recognition site; other site 651182010842 dimerization interface [polypeptide binding]; other site 651182010843 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 651182010844 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182010845 putative active site [active] 651182010846 heme pocket [chemical binding]; other site 651182010847 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 651182010848 Walker A motif; other site 651182010849 ATP binding site [chemical binding]; other site 651182010850 Walker B motif; other site 651182010851 arginine finger; other site 651182010852 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182010853 Ferredoxin [Energy production and conversion]; Region: COG1146 651182010854 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 651182010855 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 651182010856 putative FMN binding site [chemical binding]; other site 651182010857 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 651182010858 Putative small multi-drug export protein; Region: Sm_multidrug_ex; pfam06695 651182010859 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 651182010860 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 651182010861 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 651182010862 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 651182010863 Ligand binding site [chemical binding]; other site 651182010864 Electron transfer flavoprotein domain; Region: ETF; pfam01012 651182010865 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 651182010866 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 651182010867 active site 651182010868 Adenosylhomocysteinase; Provisional; Region: PTZ00075 651182010869 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 651182010870 homotetramer interface [polypeptide binding]; other site 651182010871 ligand binding site [chemical binding]; other site 651182010872 catalytic site [active] 651182010873 NAD binding site [chemical binding]; other site 651182010874 S-adenosylmethionine synthetase; Validated; Region: PRK05250 651182010875 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 651182010876 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 651182010877 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 651182010878 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 651182010879 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 651182010880 substrate binding site [chemical binding]; other site 651182010881 ATP binding site [chemical binding]; other site 651182010882 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 651182010883 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 651182010884 Probable Catalytic site; other site 651182010885 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 651182010886 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 651182010887 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 651182010888 Walker A motif; other site 651182010889 ATP binding site [chemical binding]; other site 651182010890 Walker B motif; other site 651182010891 arginine finger; other site 651182010892 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 651182010893 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 651182010894 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 651182010895 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 651182010896 G1 box; other site 651182010897 GTP/Mg2+ binding site [chemical binding]; other site 651182010898 Switch I region; other site 651182010899 G2 box; other site 651182010900 G3 box; other site 651182010901 Switch II region; other site 651182010902 G4 box; other site 651182010903 G5 box; other site 651182010904 Nucleoside recognition; Region: Gate; pfam07670 651182010905 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 651182010906 Nucleoside recognition; Region: Gate; pfam07670 651182010907 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 651182010908 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 651182010909 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 651182010910 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 651182010911 Soluble P-type ATPase [General function prediction only]; Region: COG4087 651182010912 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 651182010913 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 651182010914 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 651182010915 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 651182010916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 651182010917 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 651182010918 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 651182010919 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 651182010920 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 651182010921 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 651182010922 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 651182010923 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 651182010924 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 651182010925 binding surface 651182010926 TPR motif; other site 651182010927 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 651182010928 binding surface 651182010929 TPR motif; other site 651182010930 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 651182010931 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 651182010932 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 651182010933 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 651182010934 putative DNA binding site [nucleotide binding]; other site 651182010935 putative Zn2+ binding site [ion binding]; other site 651182010936 HipA-like N-terminal domain; Region: HipA_N; pfam07805 651182010937 HipA-like C-terminal domain; Region: HipA_C; pfam07804 651182010938 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 651182010939 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 651182010940 Walker A/P-loop; other site 651182010941 ATP binding site [chemical binding]; other site 651182010942 Q-loop/lid; other site 651182010943 ABC transporter signature motif; other site 651182010944 Walker B; other site 651182010945 D-loop; other site 651182010946 H-loop/switch region; other site 651182010947 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 651182010948 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 651182010949 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 651182010950 ABC-ATPase subunit interface; other site 651182010951 dimer interface [polypeptide binding]; other site 651182010952 putative PBP binding regions; other site 651182010953 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 651182010954 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 651182010955 intersubunit interface [polypeptide binding]; other site 651182010956 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 651182010957 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 651182010958 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 651182010959 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 651182010960 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 651182010961 S-adenosylmethionine binding site [chemical binding]; other site 651182010962 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 651182010963 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 651182010964 N-terminal plug; other site 651182010965 ligand-binding site [chemical binding]; other site 651182010966 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 651182010967 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 651182010968 S-adenosylmethionine binding site [chemical binding]; other site 651182010969 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 651182010970 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 651182010971 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 651182010972 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 651182010973 N-terminal plug; other site 651182010974 ligand-binding site [chemical binding]; other site 651182010975 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 651182010976 Tetratricopeptide repeat; Region: TPR_12; pfam13424 651182010977 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 651182010978 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 651182010979 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 651182010980 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 651182010981 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 651182010982 N-terminal plug; other site 651182010983 ligand-binding site [chemical binding]; other site 651182010984 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 651182010985 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 651182010986 N-terminal plug; other site 651182010987 ligand-binding site [chemical binding]; other site 651182010988 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 651182010989 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 651182010990 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 651182010991 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 651182010992 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 651182010993 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 651182010994 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 651182010995 S-adenosylmethionine binding site [chemical binding]; other site 651182010996 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 651182010997 Protein export membrane protein; Region: SecD_SecF; cl14618 651182010998 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 651182010999 HlyD family secretion protein; Region: HlyD_3; pfam13437 651182011000 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 651182011001 nucleotide binding site [chemical binding]; other site 651182011002 putative NEF/HSP70 interaction site [polypeptide binding]; other site 651182011003 SBD interface [polypeptide binding]; other site 651182011004 DNA-K related protein; Region: DUF3731; pfam12531 651182011005 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 651182011006 nucleotide binding site [chemical binding]; other site 651182011007 putative NEF/HSP70 interaction site [polypeptide binding]; other site 651182011008 SBD interface [polypeptide binding]; other site 651182011009 YebG protein; Region: YebG; pfam07130 651182011010 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 651182011011 FAD binding site [chemical binding]; other site 651182011012 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 651182011013 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182011014 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182011015 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 651182011016 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182011017 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 651182011018 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182011019 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182011020 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182011021 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 651182011022 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182011023 muropeptide transporter; Reviewed; Region: ampG; PRK11902 651182011024 muropeptide transporter; Validated; Region: ampG; cl17669 651182011025 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 651182011026 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 651182011027 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 651182011028 active site 651182011029 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 651182011030 Uncharacterized conserved protein [Function unknown]; Region: COG3937 651182011031 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 651182011032 ABC1 family; Region: ABC1; cl17513 651182011033 CheD chemotactic sensory transduction; Region: CheD; cl00810 651182011034 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 651182011035 NMT1-like family; Region: NMT1_2; pfam13379 651182011036 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 651182011037 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 651182011038 Walker A/P-loop; other site 651182011039 ATP binding site [chemical binding]; other site 651182011040 Q-loop/lid; other site 651182011041 ABC transporter signature motif; other site 651182011042 Walker B; other site 651182011043 D-loop; other site 651182011044 H-loop/switch region; other site 651182011045 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 651182011046 NMT1-like family; Region: NMT1_2; pfam13379 651182011047 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 651182011048 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 651182011049 dimer interface [polypeptide binding]; other site 651182011050 conserved gate region; other site 651182011051 putative PBP binding loops; other site 651182011052 ABC-ATPase subunit interface; other site 651182011053 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 651182011054 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182011055 active site 651182011056 phosphorylation site [posttranslational modification] 651182011057 intermolecular recognition site; other site 651182011058 dimerization interface [polypeptide binding]; other site 651182011059 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 651182011060 NMT1-like family; Region: NMT1_2; pfam13379 651182011061 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 651182011062 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 651182011063 minor groove reading motif; other site 651182011064 helix-hairpin-helix signature motif; other site 651182011065 substrate binding pocket [chemical binding]; other site 651182011066 active site 651182011067 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 651182011068 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 651182011069 Ligand Binding Site [chemical binding]; other site 651182011070 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 651182011071 Domain of unknown function (DUF814); Region: DUF814; pfam05670 651182011072 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182011073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182011074 active site 651182011075 phosphorylation site [posttranslational modification] 651182011076 intermolecular recognition site; other site 651182011077 dimerization interface [polypeptide binding]; other site 651182011078 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14463 651182011079 signal recognition particle protein; Provisional; Region: PRK10867 651182011080 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 651182011081 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 651182011082 P loop; other site 651182011083 GTP binding site [chemical binding]; other site 651182011084 Signal peptide binding domain; Region: SRP_SPB; pfam02978 651182011085 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 651182011086 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 651182011087 hypothetical protein; Provisional; Region: PRK00468 651182011088 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 651182011089 RimM N-terminal domain; Region: RimM; pfam01782 651182011090 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 651182011091 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 651182011092 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 651182011093 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 651182011094 RNA/DNA hybrid binding site [nucleotide binding]; other site 651182011095 active site 651182011096 hypothetical protein; Reviewed; Region: PRK12497 651182011097 Predicted methyltransferases [General function prediction only]; Region: COG0313 651182011098 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 651182011099 putative SAM binding site [chemical binding]; other site 651182011100 putative homodimer interface [polypeptide binding]; other site 651182011101 Phosphate transporter family; Region: PHO4; pfam01384 651182011102 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 651182011103 ATP-sulfurylase; Region: ATPS; cd00517 651182011104 active site 651182011105 HXXH motif; other site 651182011106 flexible loop; other site 651182011107 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 651182011108 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 651182011109 motif II; other site 651182011110 membrane protein insertase; Provisional; Region: PRK01318 651182011111 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 651182011112 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 651182011113 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 651182011114 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 651182011115 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 651182011116 homodimer interface [polypeptide binding]; other site 651182011117 substrate-cofactor binding pocket; other site 651182011118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182011119 catalytic residue [active] 651182011120 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 651182011121 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 651182011122 putative RNA binding site [nucleotide binding]; other site 651182011123 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 651182011124 homopentamer interface [polypeptide binding]; other site 651182011125 active site 651182011126 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 651182011127 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 651182011128 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 651182011129 dimerization interface [polypeptide binding]; other site 651182011130 active site 651182011131 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 651182011132 Lumazine binding domain; Region: Lum_binding; pfam00677 651182011133 Lumazine binding domain; Region: Lum_binding; pfam00677 651182011134 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 651182011135 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 651182011136 catalytic motif [active] 651182011137 Zn binding site [ion binding]; other site 651182011138 RibD C-terminal domain; Region: RibD_C; cl17279 651182011139 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 651182011140 ATP cone domain; Region: ATP-cone; pfam03477 651182011141 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 651182011142 catalytic motif [active] 651182011143 Zn binding site [ion binding]; other site 651182011144 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 651182011145 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 651182011146 dimer interface [polypeptide binding]; other site 651182011147 active site 651182011148 glycine-pyridoxal phosphate binding site [chemical binding]; other site 651182011149 folate binding site [chemical binding]; other site 651182011150 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 651182011151 acyl carrier protein; Provisional; Region: acpP; PRK00982 651182011152 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 651182011153 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 651182011154 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 651182011155 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 651182011156 HIGH motif; other site 651182011157 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 651182011158 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 651182011159 active site 651182011160 KMSKS motif; other site 651182011161 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182011162 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 651182011163 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 651182011164 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 651182011165 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 651182011166 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 651182011167 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 651182011168 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 651182011169 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 651182011170 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 651182011171 GatB domain; Region: GatB_Yqey; smart00845 651182011172 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 651182011173 Predicted integral membrane protein [Function unknown]; Region: COG5616 651182011174 Family description; Region: VCBS; pfam13517 651182011175 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 651182011176 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 651182011177 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 651182011178 ATP binding site [chemical binding]; other site 651182011179 Mg2+ binding site [ion binding]; other site 651182011180 G-X-G motif; other site 651182011181 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 651182011182 ATP binding site [chemical binding]; other site 651182011183 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 651182011184 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 651182011185 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 651182011186 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 651182011187 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 651182011188 Sporulation related domain; Region: SPOR; pfam05036 651182011189 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 651182011190 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 651182011191 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 651182011192 active site 651182011193 HIGH motif; other site 651182011194 KMSK motif region; other site 651182011195 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 651182011196 tRNA binding surface [nucleotide binding]; other site 651182011197 anticodon binding site; other site 651182011198 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 651182011199 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 651182011200 N-terminal plug; other site 651182011201 ligand-binding site [chemical binding]; other site 651182011202 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 651182011203 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 651182011204 intersubunit interface [polypeptide binding]; other site 651182011205 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 651182011206 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 651182011207 ABC-ATPase subunit interface; other site 651182011208 dimer interface [polypeptide binding]; other site 651182011209 putative PBP binding regions; other site 651182011210 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 651182011211 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 651182011212 Walker A/P-loop; other site 651182011213 ATP binding site [chemical binding]; other site 651182011214 Q-loop/lid; other site 651182011215 ABC transporter signature motif; other site 651182011216 Walker B; other site 651182011217 D-loop; other site 651182011218 H-loop/switch region; other site 651182011219 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 651182011220 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 651182011221 substrate binding pocket [chemical binding]; other site 651182011222 membrane-bound complex binding site; other site 651182011223 hinge residues; other site 651182011224 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182011225 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182011226 putative active site [active] 651182011227 heme pocket [chemical binding]; other site 651182011228 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 651182011229 dimer interface [polypeptide binding]; other site 651182011230 phosphorylation site [posttranslational modification] 651182011231 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 651182011232 ATP binding site [chemical binding]; other site 651182011233 Mg2+ binding site [ion binding]; other site 651182011234 G-X-G motif; other site 651182011235 Response regulator receiver domain; Region: Response_reg; pfam00072 651182011236 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182011237 active site 651182011238 phosphorylation site [posttranslational modification] 651182011239 intermolecular recognition site; other site 651182011240 dimerization interface [polypeptide binding]; other site 651182011241 ASC-1 homology domain, ASC-1-like subfamily. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain...; Region: ASCH_ASC-1_like; cd06554 651182011242 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 651182011243 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 651182011244 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 651182011245 non-specific DNA binding site [nucleotide binding]; other site 651182011246 salt bridge; other site 651182011247 sequence-specific DNA binding site [nucleotide binding]; other site 651182011248 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 651182011249 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 651182011250 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 651182011251 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 651182011252 active site 651182011253 catalytic residues [active] 651182011254 DNA binding site [nucleotide binding] 651182011255 Int/Topo IB signature motif; other site 651182011256 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 651182011257 Transposase; Region: DEDD_Tnp_IS110; pfam01548 651182011258 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 651182011259 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 651182011260 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 651182011261 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182011262 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 651182011263 4Fe-4S binding domain; Region: Fer4_6; pfam12837 651182011264 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 651182011265 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 651182011266 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 651182011267 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 651182011268 active site 651182011269 C-terminal domain interface [polypeptide binding]; other site 651182011270 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 651182011271 active site 651182011272 N-terminal domain interface [polypeptide binding]; other site 651182011273 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 651182011274 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 651182011275 intersubunit interface [polypeptide binding]; other site 651182011276 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 651182011277 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 651182011278 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 651182011279 intersubunit interface [polypeptide binding]; other site 651182011280 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 651182011281 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 651182011282 ABC-ATPase subunit interface; other site 651182011283 dimer interface [polypeptide binding]; other site 651182011284 putative PBP binding regions; other site 651182011285 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 651182011286 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 651182011287 Walker A/P-loop; other site 651182011288 ATP binding site [chemical binding]; other site 651182011289 Q-loop/lid; other site 651182011290 ABC transporter signature motif; other site 651182011291 Walker B; other site 651182011292 D-loop; other site 651182011293 H-loop/switch region; other site 651182011294 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 651182011295 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 651182011296 N-terminal plug; other site 651182011297 ligand-binding site [chemical binding]; other site 651182011298 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 651182011299 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 651182011300 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 651182011301 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 651182011302 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 651182011303 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 651182011304 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 651182011305 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 651182011306 binding surface 651182011307 TPR motif; other site 651182011308 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 651182011309 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 651182011310 active site 651182011311 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 651182011312 active site 651182011313 N-terminal domain interface [polypeptide binding]; other site 651182011314 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 651182011315 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 651182011316 N-terminal plug; other site 651182011317 ligand-binding site [chemical binding]; other site 651182011318 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 651182011319 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 651182011320 intersubunit interface [polypeptide binding]; other site 651182011321 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 651182011322 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 651182011323 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 651182011324 Predicted transporter (DUF2162); Region: DUF2162; cl01990 651182011325 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 651182011326 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 651182011327 Predicted amidohydrolase [General function prediction only]; Region: COG0388 651182011328 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 651182011329 active site 651182011330 catalytic triad [active] 651182011331 dimer interface [polypeptide binding]; other site 651182011332 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 651182011333 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 651182011334 HSP70 interaction site [polypeptide binding]; other site 651182011335 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 651182011336 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 651182011337 ATP binding site [chemical binding]; other site 651182011338 Walker A motif; other site 651182011339 hexamer interface [polypeptide binding]; other site 651182011340 Walker B motif; other site 651182011341 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 651182011342 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 651182011343 active site 651182011344 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 651182011345 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 651182011346 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 651182011347 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 651182011348 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 651182011349 putative NADP binding site [chemical binding]; other site 651182011350 active site 651182011351 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 651182011352 active site 2 [active] 651182011353 active site 1 [active] 651182011354 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 651182011355 active site 2 [active] 651182011356 active site 1 [active] 651182011357 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 651182011358 FMN binding site [chemical binding]; other site 651182011359 substrate binding site [chemical binding]; other site 651182011360 putative catalytic residue [active] 651182011361 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 651182011362 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 651182011363 active site 651182011364 Int/Topo IB signature motif; other site 651182011365 Uncharacterized conserved protein [Function unknown]; Region: COG1262 651182011366 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 651182011367 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 651182011368 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182011369 DNA topoisomerase; Region: Topoisom_bac; pfam01131 651182011370 DNA topoisomerase I; Validated; Region: PRK05582 651182011371 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 651182011372 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 651182011373 FeS/SAM binding site; other site 651182011374 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 651182011375 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 651182011376 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 651182011377 active site 651182011378 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 651182011379 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 651182011380 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 651182011381 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182011382 Zn2+ binding site [ion binding]; other site 651182011383 Mg2+ binding site [ion binding]; other site 651182011384 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182011385 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 651182011386 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 651182011387 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 651182011388 alphaNTD - beta interaction site [polypeptide binding]; other site 651182011389 alphaNTD homodimer interface [polypeptide binding]; other site 651182011390 alphaNTD - beta' interaction site [polypeptide binding]; other site 651182011391 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 651182011392 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 651182011393 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 651182011394 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 651182011395 RNA binding surface [nucleotide binding]; other site 651182011396 30S ribosomal protein S11; Validated; Region: PRK05309 651182011397 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 651182011398 30S ribosomal protein S13; Region: bact_S13; TIGR03631 651182011399 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 651182011400 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 651182011401 rRNA binding site [nucleotide binding]; other site 651182011402 predicted 30S ribosome binding site; other site 651182011403 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 651182011404 SecY translocase; Region: SecY; pfam00344 651182011405 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 651182011406 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 651182011407 23S rRNA binding site [nucleotide binding]; other site 651182011408 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 651182011409 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 651182011410 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 651182011411 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 651182011412 5S rRNA interface [nucleotide binding]; other site 651182011413 23S rRNA interface [nucleotide binding]; other site 651182011414 L5 interface [polypeptide binding]; other site 651182011415 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 651182011416 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 651182011417 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 651182011418 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 651182011419 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 651182011420 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 651182011421 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 651182011422 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 651182011423 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 651182011424 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 651182011425 RNA binding site [nucleotide binding]; other site 651182011426 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 651182011427 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 651182011428 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 651182011429 23S rRNA interface [nucleotide binding]; other site 651182011430 putative translocon interaction site; other site 651182011431 signal recognition particle (SRP54) interaction site; other site 651182011432 L23 interface [polypeptide binding]; other site 651182011433 trigger factor interaction site; other site 651182011434 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 651182011435 23S rRNA interface [nucleotide binding]; other site 651182011436 5S rRNA interface [nucleotide binding]; other site 651182011437 putative antibiotic binding site [chemical binding]; other site 651182011438 L25 interface [polypeptide binding]; other site 651182011439 L27 interface [polypeptide binding]; other site 651182011440 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 651182011441 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 651182011442 G-X-X-G motif; other site 651182011443 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 651182011444 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 651182011445 putative translocon binding site; other site 651182011446 protein-rRNA interface [nucleotide binding]; other site 651182011447 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 651182011448 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 651182011449 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 651182011450 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 651182011451 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 651182011452 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 651182011453 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 651182011454 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 651182011455 elongation factor Tu; Reviewed; Region: PRK00049 651182011456 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 651182011457 G1 box; other site 651182011458 GEF interaction site [polypeptide binding]; other site 651182011459 GTP/Mg2+ binding site [chemical binding]; other site 651182011460 Switch I region; other site 651182011461 G2 box; other site 651182011462 G3 box; other site 651182011463 Switch II region; other site 651182011464 G4 box; other site 651182011465 G5 box; other site 651182011466 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 651182011467 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 651182011468 Antibiotic Binding Site [chemical binding]; other site 651182011469 30S ribosomal protein S7; Validated; Region: PRK05302 651182011470 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 651182011471 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 651182011472 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 651182011473 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 651182011474 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 651182011475 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 651182011476 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 651182011477 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 651182011478 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 651182011479 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 651182011480 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 651182011481 DNA binding site [nucleotide binding] 651182011482 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 651182011483 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 651182011484 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 651182011485 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 651182011486 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 651182011487 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 651182011488 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 651182011489 RPB3 interaction site [polypeptide binding]; other site 651182011490 RPB1 interaction site [polypeptide binding]; other site 651182011491 RPB11 interaction site [polypeptide binding]; other site 651182011492 RPB10 interaction site [polypeptide binding]; other site 651182011493 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 651182011494 L11 interface [polypeptide binding]; other site 651182011495 putative EF-Tu interaction site [polypeptide binding]; other site 651182011496 putative EF-G interaction site [polypeptide binding]; other site 651182011497 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 651182011498 23S rRNA interface [nucleotide binding]; other site 651182011499 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 651182011500 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 651182011501 mRNA/rRNA interface [nucleotide binding]; other site 651182011502 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 651182011503 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 651182011504 23S rRNA interface [nucleotide binding]; other site 651182011505 L7/L12 interface [polypeptide binding]; other site 651182011506 putative thiostrepton binding site; other site 651182011507 L25 interface [polypeptide binding]; other site 651182011508 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 651182011509 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 651182011510 putative homodimer interface [polypeptide binding]; other site 651182011511 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 651182011512 heterodimer interface [polypeptide binding]; other site 651182011513 homodimer interface [polypeptide binding]; other site 651182011514 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 651182011515 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 651182011516 elongation factor Tu; Reviewed; Region: PRK00049 651182011517 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 651182011518 G1 box; other site 651182011519 GEF interaction site [polypeptide binding]; other site 651182011520 GTP/Mg2+ binding site [chemical binding]; other site 651182011521 Switch I region; other site 651182011522 G2 box; other site 651182011523 G3 box; other site 651182011524 Switch II region; other site 651182011525 G4 box; other site 651182011526 G5 box; other site 651182011527 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 651182011528 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 651182011529 Antibiotic Binding Site [chemical binding]; other site 651182011530 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 651182011531 N-acetyl-D-glucosamine binding site [chemical binding]; other site 651182011532 catalytic residue [active] 651182011533 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 651182011534 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 651182011535 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 651182011536 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 651182011537 Peptidase family U32; Region: Peptidase_U32; pfam01136 651182011538 Transglycosylase; Region: Transgly; pfam00912 651182011539 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 651182011540 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 651182011541 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 651182011542 Coenzyme A binding pocket [chemical binding]; other site 651182011543 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 651182011544 Phosphoglycerate kinase; Region: PGK; pfam00162 651182011545 substrate binding site [chemical binding]; other site 651182011546 hinge regions; other site 651182011547 ADP binding site [chemical binding]; other site 651182011548 catalytic site [active] 651182011549 hypothetical protein; Reviewed; Region: PRK00024 651182011550 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 651182011551 MPN+ (JAMM) motif; other site 651182011552 Zinc-binding site [ion binding]; other site 651182011553 DNA gyrase subunit A; Validated; Region: PRK05560 651182011554 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 651182011555 CAP-like domain; other site 651182011556 active site 651182011557 primary dimer interface [polypeptide binding]; other site 651182011558 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 651182011559 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 651182011560 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 651182011561 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 651182011562 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 651182011563 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 651182011564 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 651182011565 putative acyltransferase; Provisional; Region: PRK05790 651182011566 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 651182011567 dimer interface [polypeptide binding]; other site 651182011568 active site 651182011569 NRDE protein; Region: NRDE; pfam05742 651182011570 Protein kinase domain; Region: Pkinase; pfam00069 651182011571 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 651182011572 active site 651182011573 ATP binding site [chemical binding]; other site 651182011574 substrate binding site [chemical binding]; other site 651182011575 activation loop (A-loop); other site 651182011576 recombination factor protein RarA; Reviewed; Region: PRK13342 651182011577 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 651182011578 Walker A motif; other site 651182011579 ATP binding site [chemical binding]; other site 651182011580 Walker B motif; other site 651182011581 arginine finger; other site 651182011582 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 651182011583 GTP-binding protein Der; Reviewed; Region: PRK00093 651182011584 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 651182011585 G1 box; other site 651182011586 GTP/Mg2+ binding site [chemical binding]; other site 651182011587 Switch I region; other site 651182011588 G2 box; other site 651182011589 Switch II region; other site 651182011590 G3 box; other site 651182011591 G4 box; other site 651182011592 G5 box; other site 651182011593 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 651182011594 G1 box; other site 651182011595 GTP/Mg2+ binding site [chemical binding]; other site 651182011596 Switch I region; other site 651182011597 G2 box; other site 651182011598 G3 box; other site 651182011599 Switch II region; other site 651182011600 G4 box; other site 651182011601 G5 box; other site 651182011602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 651182011603 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 651182011604 binding surface 651182011605 TPR motif; other site 651182011606 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 651182011607 binding surface 651182011608 TPR motif; other site 651182011609 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 651182011610 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 651182011611 active site 651182011612 Substrate binding site; other site 651182011613 Mg++ binding site; other site 651182011614 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 651182011615 active site 651182011616 HIGH motif; other site 651182011617 nucleotide binding site [chemical binding]; other site 651182011618 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 651182011619 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 651182011620 putative ribose interaction site [chemical binding]; other site 651182011621 putative ADP binding site [chemical binding]; other site 651182011622 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 651182011623 Radical SAM superfamily; Region: Radical_SAM; pfam04055 651182011624 FeS/SAM binding site; other site 651182011625 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 651182011626 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 651182011627 PYR/PP interface [polypeptide binding]; other site 651182011628 dimer interface [polypeptide binding]; other site 651182011629 TPP binding site [chemical binding]; other site 651182011630 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 651182011631 TPP-binding site [chemical binding]; other site 651182011632 dimer interface [polypeptide binding]; other site 651182011633 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 651182011634 Radical SAM superfamily; Region: Radical_SAM; pfam04055 651182011635 FeS/SAM binding site; other site 651182011636 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 651182011637 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 651182011638 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 651182011639 NAD binding site [chemical binding]; other site 651182011640 substrate binding site [chemical binding]; other site 651182011641 homodimer interface [polypeptide binding]; other site 651182011642 active site 651182011643 B12 binding domain; Region: B12-binding; pfam02310 651182011644 B12 binding site [chemical binding]; other site 651182011645 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182011646 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 651182011647 FeS/SAM binding site; other site 651182011648 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 651182011649 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 651182011650 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 651182011651 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182011652 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 651182011653 FeS/SAM binding site; other site 651182011654 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 651182011655 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 651182011656 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 651182011657 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 651182011658 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 651182011659 inhibitor-cofactor binding pocket; inhibition site 651182011660 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182011661 catalytic residue [active] 651182011662 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 651182011663 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182011664 NAD(P) binding site [chemical binding]; other site 651182011665 active site 651182011666 WbqC-like protein family; Region: WbqC; pfam08889 651182011667 Radical SAM superfamily; Region: Radical_SAM; pfam04055 651182011668 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 651182011669 FeS/SAM binding site; other site 651182011670 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 651182011671 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 651182011672 S-adenosylmethionine binding site [chemical binding]; other site 651182011673 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 651182011674 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 651182011675 Ligand binding site; other site 651182011676 Putative Catalytic site; other site 651182011677 DXD motif; other site 651182011678 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 651182011679 B12 binding site [chemical binding]; other site 651182011680 Radical SAM superfamily; Region: Radical_SAM; pfam04055 651182011681 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 651182011682 FeS/SAM binding site; other site 651182011683 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 651182011684 dimer interface [polypeptide binding]; other site 651182011685 active site 651182011686 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 651182011687 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 651182011688 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 651182011689 inhibitor-cofactor binding pocket; inhibition site 651182011690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182011691 catalytic residue [active] 651182011692 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 651182011693 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 651182011694 NADP-binding site; other site 651182011695 homotetramer interface [polypeptide binding]; other site 651182011696 substrate binding site [chemical binding]; other site 651182011697 homodimer interface [polypeptide binding]; other site 651182011698 active site 651182011699 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 651182011700 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 651182011701 Metal-binding active site; metal-binding site 651182011702 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 651182011703 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 651182011704 Coenzyme A binding pocket [chemical binding]; other site 651182011705 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 651182011706 NeuB family; Region: NeuB; pfam03102 651182011707 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 651182011708 NeuB binding interface [polypeptide binding]; other site 651182011709 putative substrate binding site [chemical binding]; other site 651182011710 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 651182011711 ligand binding site; other site 651182011712 tetramer interface; other site 651182011713 Methyltransferase domain; Region: Methyltransf_23; pfam13489 651182011714 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 651182011715 S-adenosylmethionine binding site [chemical binding]; other site 651182011716 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 651182011717 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182011718 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 651182011719 FeS/SAM binding site; other site 651182011720 flagellin B; Provisional; Region: PRK13588 651182011721 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 651182011722 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 651182011723 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 651182011724 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 651182011725 Flagellar protein FliS; Region: FliS; cl00654 651182011726 proteasome ATPase; Region: pup_AAA; TIGR03689 651182011727 FlaG protein; Region: FlaG; pfam03646 651182011728 FliW protein; Region: FliW; cl00740 651182011729 Global regulator protein family; Region: CsrA; pfam02599 651182011730 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 651182011731 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 651182011732 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 651182011733 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 651182011734 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 651182011735 FlgN protein; Region: FlgN; cl09176 651182011736 Rod binding protein; Region: Rod-binding; cl01626 651182011737 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 651182011738 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 651182011739 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 651182011740 Flagellar L-ring protein; Region: FlgH; pfam02107 651182011741 SAF-like; Region: SAF_2; pfam13144 651182011742 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 651182011743 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 651182011744 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 651182011745 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 651182011746 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 651182011747 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 651182011748 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 651182011749 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 651182011750 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 651182011751 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 651182011752 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 651182011753 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 651182011754 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 651182011755 DNA binding residues [nucleotide binding] 651182011756 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 651182011757 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 651182011758 P-loop; other site 651182011759 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 651182011760 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 651182011761 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182011762 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 651182011763 FHIPEP family; Region: FHIPEP; pfam00771 651182011764 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 651182011765 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 651182011766 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 651182011767 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 651182011768 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 651182011769 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 651182011770 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 651182011771 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 651182011772 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 651182011773 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 651182011774 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 651182011775 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 651182011776 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 651182011777 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 651182011778 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 651182011779 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 651182011780 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 651182011781 Uncharacterized conserved protein [Function unknown]; Region: COG3334 651182011782 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 651182011783 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 651182011784 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 651182011785 Walker A motif/ATP binding site; other site 651182011786 Walker B motif; other site 651182011787 Flagellar assembly protein FliH; Region: FliH; pfam02108 651182011788 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 651182011789 FliG C-terminal domain; Region: FliG_C; pfam01706 651182011790 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 651182011791 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 651182011792 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 651182011793 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 651182011794 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 651182011795 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 651182011796 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 651182011797 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 651182011798 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 651182011799 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182011800 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182011801 active site 651182011802 phosphorylation site [posttranslational modification] 651182011803 intermolecular recognition site; other site 651182011804 dimerization interface [polypeptide binding]; other site 651182011805 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 651182011806 Walker A motif; other site 651182011807 ATP binding site [chemical binding]; other site 651182011808 Walker B motif; other site 651182011809 arginine finger; other site 651182011810 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182011811 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 651182011812 binding surface 651182011813 TPR motif; other site 651182011814 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 651182011815 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 651182011816 binding surface 651182011817 TPR motif; other site 651182011818 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 651182011819 Tetratricopeptide repeat; Region: TPR_16; pfam13432 651182011820 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 651182011821 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 651182011822 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 651182011823 Walker A motif; other site 651182011824 ATP binding site [chemical binding]; other site 651182011825 Walker B motif; other site 651182011826 arginine finger; other site 651182011827 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182011828 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 651182011829 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182011830 active site 651182011831 phosphorylation site [posttranslational modification] 651182011832 intermolecular recognition site; other site 651182011833 dimerization interface [polypeptide binding]; other site 651182011834 Response regulator receiver domain; Region: Response_reg; pfam00072 651182011835 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182011836 active site 651182011837 phosphorylation site [posttranslational modification] 651182011838 intermolecular recognition site; other site 651182011839 dimerization interface [polypeptide binding]; other site 651182011840 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 651182011841 GAF domain; Region: GAF_3; pfam13492 651182011842 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 651182011843 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182011844 Zn2+ binding site [ion binding]; other site 651182011845 Mg2+ binding site [ion binding]; other site 651182011846 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 651182011847 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 651182011848 putative DNA binding site [nucleotide binding]; other site 651182011849 putative Zn2+ binding site [ion binding]; other site 651182011850 AsnC family; Region: AsnC_trans_reg; pfam01037 651182011851 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 651182011852 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 651182011853 active site 651182011854 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 651182011855 substrate binding site [chemical binding]; other site 651182011856 catalytic residues [active] 651182011857 dimer interface [polypeptide binding]; other site 651182011858 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 651182011859 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 651182011860 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 651182011861 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 651182011862 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 651182011863 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 651182011864 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 651182011865 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 651182011866 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 651182011867 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182011868 acyl-activating enzyme (AAE) consensus motif; other site 651182011869 AMP binding site [chemical binding]; other site 651182011870 active site 651182011871 CoA binding site [chemical binding]; other site 651182011872 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 651182011873 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 651182011874 FMN binding site [chemical binding]; other site 651182011875 active site 651182011876 catalytic residues [active] 651182011877 substrate binding site [chemical binding]; other site 651182011878 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 651182011879 IHF dimer interface [polypeptide binding]; other site 651182011880 IHF - DNA interface [nucleotide binding]; other site 651182011881 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 651182011882 putative substrate translocation pore; other site 651182011883 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 651182011884 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 651182011885 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 651182011886 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 651182011887 FMN binding site [chemical binding]; other site 651182011888 active site 651182011889 catalytic residues [active] 651182011890 substrate binding site [chemical binding]; other site 651182011891 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 651182011892 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 651182011893 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 651182011894 active site 651182011895 GTPase Era; Reviewed; Region: era; PRK00089 651182011896 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 651182011897 G1 box; other site 651182011898 GTP/Mg2+ binding site [chemical binding]; other site 651182011899 Switch I region; other site 651182011900 G2 box; other site 651182011901 Switch II region; other site 651182011902 G3 box; other site 651182011903 G4 box; other site 651182011904 G5 box; other site 651182011905 KH domain; Region: KH_2; pfam07650 651182011906 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 651182011907 G1 box; other site 651182011908 GTP/Mg2+ binding site [chemical binding]; other site 651182011909 Switch I region; other site 651182011910 G2 box; other site 651182011911 G3 box; other site 651182011912 Switch II region; other site 651182011913 G4 box; other site 651182011914 G5 box; other site 651182011915 aspartate aminotransferase; Provisional; Region: PRK05764 651182011916 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 651182011917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182011918 homodimer interface [polypeptide binding]; other site 651182011919 catalytic residue [active] 651182011920 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 651182011921 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 651182011922 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 651182011923 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 651182011924 PAS domain S-box; Region: sensory_box; TIGR00229 651182011925 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182011926 putative active site [active] 651182011927 heme pocket [chemical binding]; other site 651182011928 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 651182011929 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 651182011930 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182011931 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 651182011932 dimer interface [polypeptide binding]; other site 651182011933 phosphorylation site [posttranslational modification] 651182011934 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 651182011935 ATP binding site [chemical binding]; other site 651182011936 Mg2+ binding site [ion binding]; other site 651182011937 G-X-G motif; other site 651182011938 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182011939 PAS domain; Region: PAS; smart00091 651182011940 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 651182011941 dimer interface [polypeptide binding]; other site 651182011942 phosphorylation site [posttranslational modification] 651182011943 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 651182011944 ATP binding site [chemical binding]; other site 651182011945 Mg2+ binding site [ion binding]; other site 651182011946 G-X-G motif; other site 651182011947 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 651182011948 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 651182011949 Na binding site [ion binding]; other site 651182011950 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182011951 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 651182011952 ATP binding site [chemical binding]; other site 651182011953 G-X-G motif; other site 651182011954 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182011955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182011956 active site 651182011957 phosphorylation site [posttranslational modification] 651182011958 intermolecular recognition site; other site 651182011959 dimerization interface [polypeptide binding]; other site 651182011960 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 651182011961 Walker A motif; other site 651182011962 ATP binding site [chemical binding]; other site 651182011963 Walker B motif; other site 651182011964 arginine finger; other site 651182011965 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182011966 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 651182011967 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 651182011968 ATP-grasp domain; Region: ATP-grasp_4; cl17255 651182011969 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 651182011970 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 651182011971 ATP-grasp domain; Region: ATP-grasp_4; cl17255 651182011972 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 651182011973 IMP binding site; other site 651182011974 dimer interface [polypeptide binding]; other site 651182011975 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 651182011976 AAA domain; Region: AAA_22; pfam13401 651182011977 Walker A motif; other site 651182011978 ATP binding site [chemical binding]; other site 651182011979 Walker B motif; other site 651182011980 Family description; Region: UvrD_C_2; pfam13538 651182011981 HRDC domain; Region: HRDC; pfam00570 651182011982 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 651182011983 CoenzymeA binding site [chemical binding]; other site 651182011984 subunit interaction site [polypeptide binding]; other site 651182011985 PHB binding site; other site 651182011986 DsrE/DsrF-like family; Region: DrsE; pfam02635 651182011987 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 651182011988 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 651182011989 putative acyl-acceptor binding pocket; other site 651182011990 helicase 45; Provisional; Region: PTZ00424 651182011991 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 651182011992 ATP binding site [chemical binding]; other site 651182011993 Mg++ binding site [ion binding]; other site 651182011994 motif III; other site 651182011995 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 651182011996 nucleotide binding region [chemical binding]; other site 651182011997 ATP-binding site [chemical binding]; other site 651182011998 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 651182011999 putative RNA binding site [nucleotide binding]; other site 651182012000 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 651182012001 phosphate binding site [ion binding]; other site 651182012002 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 651182012003 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 651182012004 phosphate binding site [ion binding]; other site 651182012005 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 651182012006 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 651182012007 active site 651182012008 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 651182012009 3-oxoacyl-[acyl-carrier-protein] synthase; Region: PLN02836 651182012010 active site 651182012011 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 651182012012 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 651182012013 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 651182012014 3-oxoacyl-acyl carrier protein synthase; Provisional; Region: PTZ00050 651182012015 active site 651182012016 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 651182012017 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 651182012018 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 651182012019 putative NADP binding site [chemical binding]; other site 651182012020 active site 651182012021 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182012022 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 651182012023 Walker B motif; other site 651182012024 arginine finger; other site 651182012025 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 651182012026 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 651182012027 putative acyl-acceptor binding pocket; other site 651182012028 Protein of unknown function (DUF342); Region: DUF342; pfam03961 651182012029 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 651182012030 linker region; other site 651182012031 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 651182012032 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 651182012033 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 651182012034 UbiA prenyltransferase family; Region: UbiA; pfam01040 651182012035 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 651182012036 ParB-like nuclease domain; Region: ParB; smart00470 651182012037 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 651182012038 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 651182012039 P-loop; other site 651182012040 Magnesium ion binding site [ion binding]; other site 651182012041 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 651182012042 Magnesium ion binding site [ion binding]; other site 651182012043 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 651182012044 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182012045 Cysteine-rich domain; Region: CCG; pfam02754 651182012046 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 651182012047 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 651182012048 ATP binding site [chemical binding]; other site 651182012049 putative Mg++ binding site [ion binding]; other site 651182012050 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 651182012051 nucleotide binding region [chemical binding]; other site 651182012052 ATP-binding site [chemical binding]; other site 651182012053 Helicase associated domain (HA2); Region: HA2; pfam04408 651182012054 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 651182012055 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 651182012056 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 651182012057 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 651182012058 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 651182012059 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 651182012060 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 651182012061 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 651182012062 active site 651182012063 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 651182012064 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 651182012065 active site 651182012066 metal-binding site [ion binding] 651182012067 nucleotide-binding site [chemical binding]; other site 651182012068 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 651182012069 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 651182012070 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 651182012071 von Willebrand factor type A domain; Region: VWA_2; pfam13519 651182012072 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 651182012073 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 651182012074 ligand binding site [chemical binding]; other site 651182012075 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 651182012076 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 651182012077 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 651182012078 SLBB domain; Region: SLBB; pfam10531 651182012079 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 651182012080 Chain length determinant protein; Region: Wzz; cl15801 651182012081 Chain length determinant protein; Region: Wzz; cl15801 651182012082 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 651182012083 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 651182012084 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 651182012085 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 651182012086 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 651182012087 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 651182012088 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 651182012089 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182012090 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182012091 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182012092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182012093 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182012094 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182012095 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182012096 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 651182012097 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 651182012098 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182012099 Right handed beta helix region; Region: Beta_helix; pfam13229 651182012100 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182012101 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 651182012102 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 651182012103 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 651182012104 Acyltransferase family; Region: Acyl_transf_3; pfam01757 651182012105 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 651182012106 putative trimer interface [polypeptide binding]; other site 651182012107 putative CoA binding site [chemical binding]; other site 651182012108 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 651182012109 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 651182012110 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 651182012111 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 651182012112 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 651182012113 trimer interface [polypeptide binding]; other site 651182012114 active site 651182012115 substrate binding site [chemical binding]; other site 651182012116 CoA binding site [chemical binding]; other site 651182012117 Methyltransferase domain; Region: Methyltransf_23; pfam13489 651182012118 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 651182012119 S-adenosylmethionine binding site [chemical binding]; other site 651182012120 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 651182012121 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 651182012122 Ligand Binding Site [chemical binding]; other site 651182012123 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 651182012124 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 651182012125 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 651182012126 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 651182012127 acyl-activating enzyme (AAE) consensus motif; other site 651182012128 AMP binding site [chemical binding]; other site 651182012129 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 651182012130 Condensation domain; Region: Condensation; pfam00668 651182012131 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 651182012132 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 651182012133 Condensation domain; Region: Condensation; pfam00668 651182012134 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 651182012135 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 651182012136 acyl-activating enzyme (AAE) consensus motif; other site 651182012137 AMP binding site [chemical binding]; other site 651182012138 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 651182012139 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 651182012140 Bacterial sugar transferase; Region: Bac_transf; pfam02397 651182012141 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 651182012142 binding surface 651182012143 TPR motif; other site 651182012144 TPR repeat; Region: TPR_11; pfam13414 651182012145 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 651182012146 binding surface 651182012147 TPR motif; other site 651182012148 TPR repeat; Region: TPR_11; pfam13414 651182012149 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 651182012150 binding surface 651182012151 TPR motif; other site 651182012152 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 651182012153 TPR motif; other site 651182012154 binding surface 651182012155 Tetratricopeptide repeat; Region: TPR_12; pfam13424 651182012156 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 651182012157 binding surface 651182012158 TPR motif; other site 651182012159 Predicted transcriptional regulator [Transcription]; Region: COG1959 651182012160 Transcriptional regulator; Region: Rrf2; cl17282 651182012161 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182012162 active site 651182012163 phosphorylation site [posttranslational modification] 651182012164 dimerization interface [polypeptide binding]; other site 651182012165 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182012166 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 651182012167 ATP binding site [chemical binding]; other site 651182012168 Mg2+ binding site [ion binding]; other site 651182012169 G-X-G motif; other site 651182012170 Response regulator receiver domain; Region: Response_reg; pfam00072 651182012171 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182012172 active site 651182012173 phosphorylation site [posttranslational modification] 651182012174 intermolecular recognition site; other site 651182012175 dimerization interface [polypeptide binding]; other site 651182012176 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 651182012177 Ligand Binding Site [chemical binding]; other site 651182012178 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 651182012179 Ligand Binding Site [chemical binding]; other site 651182012180 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182012181 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 651182012182 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 651182012183 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 651182012184 4Fe-4S binding domain; Region: Fer4; cl02805 651182012185 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 651182012186 heme-binding residues [chemical binding]; other site 651182012187 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 651182012188 heme-binding residues [chemical binding]; other site 651182012189 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 651182012190 heme-binding residues [chemical binding]; other site 651182012191 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 651182012192 heme-binding residues [chemical binding]; other site 651182012193 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 651182012194 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 651182012195 FAD binding pocket [chemical binding]; other site 651182012196 FAD binding motif [chemical binding]; other site 651182012197 phosphate binding motif [ion binding]; other site 651182012198 beta-alpha-beta structure motif; other site 651182012199 NAD binding pocket [chemical binding]; other site 651182012200 Iron coordination center [ion binding]; other site 651182012201 putative oxidoreductase; Provisional; Region: PRK12831 651182012202 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 651182012203 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 651182012204 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 651182012205 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 651182012206 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 651182012207 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 651182012208 TMP-binding site; other site 651182012209 ATP-binding site [chemical binding]; other site 651182012210 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 651182012211 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 651182012212 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 651182012213 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 651182012214 dimer interaction site [polypeptide binding]; other site 651182012215 substrate-binding tunnel; other site 651182012216 active site 651182012217 catalytic site [active] 651182012218 substrate binding site [chemical binding]; other site 651182012219 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 651182012220 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 651182012221 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 651182012222 active site 651182012223 PilZ domain; Region: PilZ; pfam07238 651182012224 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 651182012225 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 651182012226 GAF domain; Region: GAF_2; pfam13185 651182012227 GAF domain; Region: GAF; pfam01590 651182012228 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 651182012229 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 651182012230 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 651182012231 Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E); Region: PHA_synth_III_E; cl09914 651182012232 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 651182012233 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 651182012234 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182012235 active site 651182012236 phosphorylation site [posttranslational modification] 651182012237 intermolecular recognition site; other site 651182012238 dimerization interface [polypeptide binding]; other site 651182012239 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 651182012240 DNA binding residues [nucleotide binding] 651182012241 dimerization interface [polypeptide binding]; other site 651182012242 PAS domain; Region: PAS; smart00091 651182012243 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 651182012244 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182012245 putative active site [active] 651182012246 heme pocket [chemical binding]; other site 651182012247 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 651182012248 Histidine kinase; Region: HisKA_3; pfam07730 651182012249 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 651182012250 ATP binding site [chemical binding]; other site 651182012251 Mg2+ binding site [ion binding]; other site 651182012252 G-X-G motif; other site 651182012253 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 651182012254 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 651182012255 active site 651182012256 chaperone protein DnaJ; Provisional; Region: PRK14294 651182012257 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 651182012258 HSP70 interaction site [polypeptide binding]; other site 651182012259 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 651182012260 substrate binding site [polypeptide binding]; other site 651182012261 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 651182012262 Zn binding sites [ion binding]; other site 651182012263 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 651182012264 dimer interface [polypeptide binding]; other site 651182012265 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 651182012266 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 651182012267 S-adenosylmethionine binding site [chemical binding]; other site 651182012268 L-aspartate oxidase; Provisional; Region: PRK09077 651182012269 L-aspartate oxidase; Provisional; Region: PRK06175 651182012270 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 651182012271 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 651182012272 Bacterial SH3 domain; Region: SH3_3; pfam08239 651182012273 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 651182012274 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 651182012275 hypothetical protein; Reviewed; Region: PRK09588 651182012276 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 651182012277 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 651182012278 acyl-activating enzyme (AAE) consensus motif; other site 651182012279 putative AMP binding site [chemical binding]; other site 651182012280 putative active site [active] 651182012281 putative CoA binding site [chemical binding]; other site 651182012282 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 651182012283 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 651182012284 active site 651182012285 futalosine nucleosidase; Region: fut_nucase; TIGR03664 651182012286 Dehydroquinase class II; Region: DHquinase_II; pfam01220 651182012287 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 651182012288 trimer interface [polypeptide binding]; other site 651182012289 active site 651182012290 dimer interface [polypeptide binding]; other site 651182012291 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 651182012292 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 651182012293 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 651182012294 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 651182012295 dimer interface [polypeptide binding]; other site 651182012296 PYR/PP interface [polypeptide binding]; other site 651182012297 TPP binding site [chemical binding]; other site 651182012298 substrate binding site [chemical binding]; other site 651182012299 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 651182012300 TPP-binding site; other site 651182012301 4Fe-4S binding domain; Region: Fer4; pfam00037 651182012302 CRISPR/Cas system-associated protein Cas8c; Region: Csp2_I-U; cl11894 651182012303 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 651182012304 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 651182012305 active site 651182012306 metal binding site [ion binding]; metal-binding site 651182012307 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 651182012308 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 651182012309 dimerization interface [polypeptide binding]; other site 651182012310 domain crossover interface; other site 651182012311 redox-dependent activation switch; other site 651182012312 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182012313 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 651182012314 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 651182012315 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 651182012316 NADP binding site [chemical binding]; other site 651182012317 dimer interface [polypeptide binding]; other site 651182012318 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 651182012319 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cd02106 651182012320 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 651182012321 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cd02106 651182012322 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 651182012323 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182012324 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 651182012325 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 651182012326 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 651182012327 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 651182012328 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 651182012329 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 651182012330 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 651182012331 Tim44-like domain; Region: Tim44; pfam04280 651182012332 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 651182012333 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 651182012334 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 651182012335 ATP binding site [chemical binding]; other site 651182012336 putative Mg++ binding site [ion binding]; other site 651182012337 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 651182012338 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 651182012339 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 651182012340 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 651182012341 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 651182012342 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 651182012343 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 651182012344 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 651182012345 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 651182012346 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 651182012347 HsdM N-terminal domain; Region: HsdM_N; pfam12161 651182012348 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 651182012349 Methyltransferase domain; Region: Methyltransf_26; pfam13659 651182012350 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 651182012351 homotrimer interaction site [polypeptide binding]; other site 651182012352 putative active site [active] 651182012353 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 651182012354 active site 651182012355 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 651182012356 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 651182012357 DNA binding residues [nucleotide binding] 651182012358 drug binding residues [chemical binding]; other site 651182012359 dimer interface [polypeptide binding]; other site 651182012360 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 651182012361 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 651182012362 D-galactonate transporter; Region: 2A0114; TIGR00893 651182012363 putative substrate translocation pore; other site 651182012364 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 651182012365 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 651182012366 ATP binding site [chemical binding]; other site 651182012367 putative Mg++ binding site [ion binding]; other site 651182012368 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 651182012369 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 651182012370 nucleotide binding region [chemical binding]; other site 651182012371 ATP-binding site [chemical binding]; other site 651182012372 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 651182012373 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 651182012374 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 651182012375 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 651182012376 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 651182012377 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 651182012378 oligomer interface [polypeptide binding]; other site 651182012379 active site 651182012380 metal binding site [ion binding]; metal-binding site 651182012381 Predicted acetyltransferase [General function prediction only]; Region: COG5628 651182012382 LabA_like proteins; Region: LabA_like; cd06167 651182012383 putative metal binding site [ion binding]; other site 651182012384 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 651182012385 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 651182012386 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 651182012387 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 651182012388 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 651182012389 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 651182012390 HSP70 interaction site [polypeptide binding]; other site 651182012391 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 651182012392 dimer interface [polypeptide binding]; other site 651182012393 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 651182012394 active site 651182012395 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 651182012396 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 651182012397 active site 651182012398 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 651182012399 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 651182012400 FeS/SAM binding site; other site 651182012401 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 651182012402 Ligand Binding Site [chemical binding]; other site 651182012403 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 651182012404 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 651182012405 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 651182012406 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 651182012407 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182012408 Cysteine-rich domain; Region: CCG; pfam02754 651182012409 Cysteine-rich domain; Region: CCG; pfam02754 651182012410 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 651182012411 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 651182012412 phosphoserine phosphatase SerB; Region: serB; TIGR00338 651182012413 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 651182012414 motif II; other site 651182012415 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 651182012416 putative substrate translocation pore; other site 651182012417 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 651182012418 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 651182012419 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 651182012420 active site 651182012421 NTP binding site [chemical binding]; other site 651182012422 metal binding triad [ion binding]; metal-binding site 651182012423 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 651182012424 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 651182012425 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 651182012426 UbiA prenyltransferase family; Region: UbiA; pfam01040 651182012427 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 651182012428 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 651182012429 FeS/SAM binding site; other site 651182012430 Methyltransferase domain; Region: Methyltransf_31; pfam13847 651182012431 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 651182012432 S-adenosylmethionine binding site [chemical binding]; other site 651182012433 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 651182012434 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 651182012435 P-loop; other site 651182012436 AAA domain; Region: AAA_32; pfam13654 651182012437 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 651182012438 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 651182012439 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 651182012440 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 651182012441 TrkA-N domain; Region: TrkA_N; pfam02254 651182012442 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 651182012443 TrkA-C domain; Region: TrkA_C; pfam02080 651182012444 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 651182012445 active site 651182012446 phosphorylation site [posttranslational modification] 651182012447 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 651182012448 EamA-like transporter family; Region: EamA; pfam00892 651182012449 EamA-like transporter family; Region: EamA; pfam00892 651182012450 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 651182012451 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 651182012452 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 651182012453 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 651182012454 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182012455 dimer interface [polypeptide binding]; other site 651182012456 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 651182012457 putative CheW interface [polypeptide binding]; other site 651182012458 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 651182012459 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 651182012460 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 651182012461 Beta-Casp domain; Region: Beta-Casp; smart01027 651182012462 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 651182012463 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 651182012464 AsmA family; Region: AsmA; pfam05170 651182012465 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 651182012466 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 651182012467 dimer interface [polypeptide binding]; other site 651182012468 catalytic triad [active] 651182012469 peroxidatic and resolving cysteines [active] 651182012470 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 651182012471 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 651182012472 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 651182012473 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 651182012474 RNA binding site [nucleotide binding]; other site 651182012475 Predicted membrane protein [Function unknown]; Region: COG1971 651182012476 Domain of unknown function DUF; Region: DUF204; pfam02659 651182012477 Domain of unknown function DUF; Region: DUF204; pfam02659 651182012478 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 651182012479 diiron binding motif [ion binding]; other site 651182012480 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 651182012481 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 651182012482 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 651182012483 AP (apurinic/apyrimidinic) site pocket; other site 651182012484 DNA interaction; other site 651182012485 Metal-binding active site; metal-binding site 651182012486 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 651182012487 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 651182012488 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 651182012489 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 651182012490 HlyD family secretion protein; Region: HlyD_3; pfam13437 651182012491 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 651182012492 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182012493 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 651182012494 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 651182012495 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 651182012496 active site 651182012497 metal binding site [ion binding]; metal-binding site 651182012498 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 651182012499 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 651182012500 active site 651182012501 metal-binding site 651182012502 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 651182012503 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 651182012504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182012505 homodimer interface [polypeptide binding]; other site 651182012506 catalytic residue [active] 651182012507 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 651182012508 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 651182012509 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 651182012510 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 651182012511 Ligand Binding Site [chemical binding]; other site 651182012512 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 651182012513 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 651182012514 substrate binding pocket [chemical binding]; other site 651182012515 membrane-bound complex binding site; other site 651182012516 hinge residues; other site 651182012517 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 651182012518 dimer interface [polypeptide binding]; other site 651182012519 phosphorylation site [posttranslational modification] 651182012520 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 651182012521 ATP binding site [chemical binding]; other site 651182012522 Mg2+ binding site [ion binding]; other site 651182012523 G-X-G motif; other site 651182012524 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182012525 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182012526 metal binding site [ion binding]; metal-binding site 651182012527 active site 651182012528 I-site; other site 651182012529 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 651182012530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182012531 active site 651182012532 phosphorylation site [posttranslational modification] 651182012533 intermolecular recognition site; other site 651182012534 dimerization interface [polypeptide binding]; other site 651182012535 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182012536 Zn2+ binding site [ion binding]; other site 651182012537 Mg2+ binding site [ion binding]; other site 651182012538 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182012539 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182012540 active site 651182012541 phosphorylation site [posttranslational modification] 651182012542 intermolecular recognition site; other site 651182012543 dimerization interface [polypeptide binding]; other site 651182012544 Response regulator receiver domain; Region: Response_reg; pfam00072 651182012545 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182012546 active site 651182012547 phosphorylation site [posttranslational modification] 651182012548 intermolecular recognition site; other site 651182012549 dimerization interface [polypeptide binding]; other site 651182012550 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182012551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182012552 active site 651182012553 phosphorylation site [posttranslational modification] 651182012554 intermolecular recognition site; other site 651182012555 dimerization interface [polypeptide binding]; other site 651182012556 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182012557 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182012558 active site 651182012559 I-site; other site 651182012560 metal binding site [ion binding]; metal-binding site 651182012561 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 651182012562 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 651182012563 FeS/SAM binding site; other site 651182012564 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182012565 metal binding site [ion binding]; metal-binding site 651182012566 active site 651182012567 I-site; other site 651182012568 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 651182012569 EamA-like transporter family; Region: EamA; pfam00892 651182012570 EamA-like transporter family; Region: EamA; pfam00892 651182012571 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 651182012572 Uncharacterized conserved protein [Function unknown]; Region: COG1624 651182012573 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 651182012574 YbbR-like protein; Region: YbbR; pfam07949 651182012575 YbbR-like protein; Region: YbbR; pfam07949 651182012576 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 651182012577 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 651182012578 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 651182012579 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 651182012580 ACS interaction site; other site 651182012581 CODH interaction site; other site 651182012582 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 651182012583 cubane metal cluster (B-cluster) [ion binding]; other site 651182012584 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 651182012585 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 651182012586 4Fe-4S binding domain; Region: Fer4; pfam00037 651182012587 AMP-binding domain protein; Validated; Region: PRK08315 651182012588 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182012589 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 651182012590 acyl-activating enzyme (AAE) consensus motif; other site 651182012591 putative AMP binding site [chemical binding]; other site 651182012592 putative active site [active] 651182012593 putative CoA binding site [chemical binding]; other site 651182012594 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 651182012595 Cupin domain; Region: Cupin_2; pfam07883 651182012596 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 651182012597 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 651182012598 homodimer interface [polypeptide binding]; other site 651182012599 NAD binding pocket [chemical binding]; other site 651182012600 ATP binding pocket [chemical binding]; other site 651182012601 Mg binding site [ion binding]; other site 651182012602 active-site loop [active] 651182012603 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 651182012604 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 651182012605 AAA domain; Region: AAA_26; pfam13500 651182012606 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 651182012607 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 651182012608 substrate-cofactor binding pocket; other site 651182012609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182012610 catalytic residue [active] 651182012611 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 651182012612 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 651182012613 inhibitor-cofactor binding pocket; inhibition site 651182012614 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182012615 catalytic residue [active] 651182012616 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 651182012617 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182012618 PAS fold; Region: PAS_3; pfam08447 651182012619 putative active site [active] 651182012620 heme pocket [chemical binding]; other site 651182012621 GAF domain; Region: GAF_2; pfam13185 651182012622 GAF domain; Region: GAF_3; pfam13492 651182012623 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182012624 PAS domain; Region: PAS_9; pfam13426 651182012625 putative active site [active] 651182012626 heme pocket [chemical binding]; other site 651182012627 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 651182012628 dimer interface [polypeptide binding]; other site 651182012629 phosphorylation site [posttranslational modification] 651182012630 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 651182012631 ATP binding site [chemical binding]; other site 651182012632 G-X-G motif; other site 651182012633 Isochorismatase family; Region: Isochorismatase; pfam00857 651182012634 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 651182012635 catalytic triad [active] 651182012636 conserved cis-peptide bond; other site 651182012637 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 651182012638 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 651182012639 substrate binding site [chemical binding]; other site 651182012640 oxyanion hole (OAH) forming residues; other site 651182012641 trimer interface [polypeptide binding]; other site 651182012642 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 651182012643 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 651182012644 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 651182012645 carboxyltransferase (CT) interaction site; other site 651182012646 biotinylation site [posttranslational modification]; other site 651182012647 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 651182012648 Transcriptional regulator [Transcription]; Region: IclR; COG1414 651182012649 Bacterial transcriptional regulator; Region: IclR; pfam01614 651182012650 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 651182012651 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 651182012652 active site 651182012653 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 651182012654 biotin synthase; Region: bioB; TIGR00433 651182012655 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 651182012656 FeS/SAM binding site; other site 651182012657 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 651182012658 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 651182012659 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 651182012660 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 651182012661 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 651182012662 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182012663 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 651182012664 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 651182012665 dimer interface [polypeptide binding]; other site 651182012666 active site 651182012667 Phosphopantetheine attachment site; Region: PP-binding; cl09936 651182012668 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 651182012669 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 651182012670 putative acyl-acceptor binding pocket; other site 651182012671 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; cl15377 651182012672 FeS/SAM binding site; other site 651182012673 Radical SAM superfamily; Region: Radical_SAM; pfam04055 651182012674 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 651182012675 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 651182012676 active site 2 [active] 651182012677 active site 1 [active] 651182012678 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 651182012679 Predicted exporter [General function prediction only]; Region: COG4258 651182012680 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 651182012681 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 651182012682 B12 binding site [chemical binding]; other site 651182012683 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 651182012684 FeS/SAM binding site; other site 651182012685 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 651182012686 Ligand binding site; other site 651182012687 Putative Catalytic site; other site 651182012688 DXD motif; other site 651182012689 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 651182012690 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 651182012691 putative acyl-acceptor binding pocket; other site 651182012692 Phosphopantetheine attachment site; Region: PP-binding; cl09936 651182012693 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 651182012694 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 651182012695 dimer interface [polypeptide binding]; other site 651182012696 active site 651182012697 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 651182012698 Phosphopantetheine attachment site; Region: PP-binding; cl09936 651182012699 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 651182012700 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 651182012701 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182012702 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 651182012703 FeS/SAM binding site; other site 651182012704 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 651182012705 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182012706 acyl-activating enzyme (AAE) consensus motif; other site 651182012707 AMP binding site [chemical binding]; other site 651182012708 active site 651182012709 CoA binding site [chemical binding]; other site 651182012710 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 651182012711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 651182012712 NAD(P) binding site [chemical binding]; other site 651182012713 active site 651182012714 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 651182012715 active site 651182012716 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 651182012717 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 651182012718 dimer interface [polypeptide binding]; other site 651182012719 active site 651182012720 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 651182012721 active site 651182012722 B12 binding domain; Region: B12-binding; pfam02310 651182012723 B12 binding site [chemical binding]; other site 651182012724 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182012725 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 651182012726 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182012727 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; cl15377 651182012728 FeS/SAM binding site; other site 651182012729 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 651182012730 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 651182012731 S-adenosylmethionine binding site [chemical binding]; other site 651182012732 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 651182012733 anti sigma factor interaction site; other site 651182012734 regulatory phosphorylation site [posttranslational modification]; other site 651182012735 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 651182012736 Permease; Region: Permease; pfam02405 651182012737 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 651182012738 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182012739 Walker A/P-loop; other site 651182012740 ATP binding site [chemical binding]; other site 651182012741 Q-loop/lid; other site 651182012742 ABC transporter signature motif; other site 651182012743 Walker B; other site 651182012744 D-loop; other site 651182012745 H-loop/switch region; other site 651182012746 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 651182012747 mce related protein; Region: MCE; pfam02470 651182012748 Protein of unknown function (DUF330); Region: DUF330; cl01135 651182012749 primosomal protein N' Region: priA; TIGR00595 651182012750 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 651182012751 ATP binding site [chemical binding]; other site 651182012752 putative Mg++ binding site [ion binding]; other site 651182012753 helicase superfamily c-terminal domain; Region: HELICc; smart00490 651182012754 Predicted membrane protein [Function unknown]; Region: COG1238 651182012755 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 651182012756 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 651182012757 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 651182012758 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 651182012759 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 651182012760 DctM-like transporters; Region: DctM; pfam06808 651182012761 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 651182012762 MarR family; Region: MarR_2; pfam12802 651182012763 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 651182012764 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182012765 dimer interface [polypeptide binding]; other site 651182012766 putative CheW interface [polypeptide binding]; other site 651182012767 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 651182012768 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182012769 active site 651182012770 phosphorylation site [posttranslational modification] 651182012771 intermolecular recognition site; other site 651182012772 dimerization interface [polypeptide binding]; other site 651182012773 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 651182012774 DNA binding residues [nucleotide binding] 651182012775 dimerization interface [polypeptide binding]; other site 651182012776 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182012777 PAS domain; Region: PAS_9; pfam13426 651182012778 putative active site [active] 651182012779 heme pocket [chemical binding]; other site 651182012780 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 651182012781 Histidine kinase; Region: HisKA_3; pfam07730 651182012782 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 651182012783 ATP binding site [chemical binding]; other site 651182012784 Mg2+ binding site [ion binding]; other site 651182012785 G-X-G motif; other site 651182012786 Integrase core domain; Region: rve; pfam00665 651182012787 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 651182012788 S-adenosylmethionine binding site [chemical binding]; other site 651182012789 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 651182012790 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]; Region: COG3357 651182012791 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 651182012792 FAD binding site [chemical binding]; other site 651182012793 Domain of unknown function DUF77; Region: DUF77; pfam01910 651182012794 purine nucleoside phosphorylase; Provisional; Region: PRK08202 651182012795 Uncharacterized conserved protein [Function unknown]; Region: COG1739 651182012796 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 651182012797 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 651182012798 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 651182012799 non-specific DNA binding site [nucleotide binding]; other site 651182012800 salt bridge; other site 651182012801 sequence-specific DNA binding site [nucleotide binding]; other site 651182012802 Cupin domain; Region: Cupin_2; pfam07883 651182012803 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 651182012804 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 651182012805 substrate binding site [chemical binding]; other site 651182012806 ligand binding site [chemical binding]; other site 651182012807 3-isopropylmalate dehydratase small subunit [Amino acid transport and metabolism]; Region: LeuD; COG0066 651182012808 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 651182012809 substrate binding site [chemical binding]; other site 651182012810 ATP-NAD kinase; Region: NAD_kinase; pfam01513 651182012811 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 651182012812 DNA polymerase I; Provisional; Region: PRK05755 651182012813 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 651182012814 active site 651182012815 metal binding site 1 [ion binding]; metal-binding site 651182012816 putative 5' ssDNA interaction site; other site 651182012817 metal binding site 3; metal-binding site 651182012818 metal binding site 2 [ion binding]; metal-binding site 651182012819 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 651182012820 putative DNA binding site [nucleotide binding]; other site 651182012821 putative metal binding site [ion binding]; other site 651182012822 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 651182012823 active site 651182012824 catalytic site [active] 651182012825 substrate binding site [chemical binding]; other site 651182012826 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 651182012827 active site 651182012828 DNA binding site [nucleotide binding] 651182012829 catalytic site [active] 651182012830 cellulose synthase A [UDP-forming], catalytic subunit; Region: PLN02915 651182012831 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 651182012832 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 651182012833 active site 651182012834 substrate binding site [chemical binding]; other site 651182012835 cosubstrate binding site; other site 651182012836 catalytic site [active] 651182012837 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 651182012838 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 651182012839 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 651182012840 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 651182012841 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 651182012842 Walker A/P-loop; other site 651182012843 ATP binding site [chemical binding]; other site 651182012844 Q-loop/lid; other site 651182012845 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 651182012846 ABC transporter signature motif; other site 651182012847 Walker B; other site 651182012848 D-loop; other site 651182012849 H-loop/switch region; other site 651182012850 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 651182012851 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 651182012852 dimer interface [polypeptide binding]; other site 651182012853 Citrate synthase; Region: Citrate_synt; pfam00285 651182012854 active site 651182012855 citrylCoA binding site [chemical binding]; other site 651182012856 NADH binding [chemical binding]; other site 651182012857 cationic pore residues; other site 651182012858 oxalacetate/citrate binding site [chemical binding]; other site 651182012859 coenzyme A binding site [chemical binding]; other site 651182012860 catalytic triad [active] 651182012861 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182012862 Zn2+ binding site [ion binding]; other site 651182012863 Mg2+ binding site [ion binding]; other site 651182012864 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 651182012865 HSP70 interaction site [polypeptide binding]; other site 651182012866 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182012867 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182012868 metal binding site [ion binding]; metal-binding site 651182012869 active site 651182012870 I-site; other site 651182012871 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_21; cd08520 651182012872 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 651182012873 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 651182012874 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 651182012875 dimer interface [polypeptide binding]; other site 651182012876 conserved gate region; other site 651182012877 putative PBP binding loops; other site 651182012878 ABC-ATPase subunit interface; other site 651182012879 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 651182012880 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 651182012881 putative PBP binding loops; other site 651182012882 ABC-ATPase subunit interface; other site 651182012883 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 651182012884 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 651182012885 Walker A/P-loop; other site 651182012886 ATP binding site [chemical binding]; other site 651182012887 Q-loop/lid; other site 651182012888 ABC transporter signature motif; other site 651182012889 Walker B; other site 651182012890 D-loop; other site 651182012891 H-loop/switch region; other site 651182012892 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 651182012893 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 651182012894 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 651182012895 Walker A/P-loop; other site 651182012896 ATP binding site [chemical binding]; other site 651182012897 Q-loop/lid; other site 651182012898 ABC transporter signature motif; other site 651182012899 Walker B; other site 651182012900 D-loop; other site 651182012901 H-loop/switch region; other site 651182012902 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 651182012903 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 651182012904 homodimer interaction site [polypeptide binding]; other site 651182012905 cofactor binding site; other site 651182012906 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 651182012907 active site 651182012908 dimer interface [polypeptide binding]; other site 651182012909 metal binding site [ion binding]; metal-binding site 651182012910 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 651182012911 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 651182012912 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 651182012913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182012914 active site 651182012915 phosphorylation site [posttranslational modification] 651182012916 intermolecular recognition site; other site 651182012917 dimerization interface [polypeptide binding]; other site 651182012918 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 651182012919 DNA binding residues [nucleotide binding] 651182012920 dimerization interface [polypeptide binding]; other site 651182012921 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 651182012922 dimer interface [polypeptide binding]; other site 651182012923 phosphorylation site [posttranslational modification] 651182012924 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 651182012925 ATP binding site [chemical binding]; other site 651182012926 Mg2+ binding site [ion binding]; other site 651182012927 G-X-G motif; other site 651182012928 Response regulator receiver domain; Region: Response_reg; pfam00072 651182012929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182012930 active site 651182012931 phosphorylation site [posttranslational modification] 651182012932 intermolecular recognition site; other site 651182012933 dimerization interface [polypeptide binding]; other site 651182012934 septum formation inhibitor; Reviewed; Region: minC; PRK00513 651182012935 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 651182012936 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 651182012937 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 651182012938 P-loop; other site 651182012939 ADP binding residues [chemical binding]; other site 651182012940 Switch I; other site 651182012941 Switch II; other site 651182012942 Septum formation topological specificity factor MinE; Region: MinE; cl00538 651182012943 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 651182012944 methionine sulfoxide reductase B; Provisional; Region: PRK00222 651182012945 SelR domain; Region: SelR; pfam01641 651182012946 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 651182012947 active site 651182012948 NTP binding site [chemical binding]; other site 651182012949 metal binding triad [ion binding]; metal-binding site 651182012950 HEPN domain; Region: HEPN; cl00824 651182012951 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 651182012952 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 651182012953 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182012954 Walker A/P-loop; other site 651182012955 ATP binding site [chemical binding]; other site 651182012956 ABC transporter signature motif; other site 651182012957 Walker B; other site 651182012958 D-loop; other site 651182012959 H-loop/switch region; other site 651182012960 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 651182012961 NMT1/THI5 like; Region: NMT1; pfam09084 651182012962 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 651182012963 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 651182012964 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 651182012965 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 651182012966 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182012967 dimer interface [polypeptide binding]; other site 651182012968 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 651182012969 putative CheW interface [polypeptide binding]; other site 651182012970 multidrug efflux protein; Reviewed; Region: PRK01766 651182012971 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 651182012972 cation binding site [ion binding]; other site 651182012973 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182012974 Zn2+ binding site [ion binding]; other site 651182012975 Mg2+ binding site [ion binding]; other site 651182012976 pantothenate kinase; Reviewed; Region: PRK13318 651182012977 YbbR-like protein; Region: YbbR; pfam07949 651182012978 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 651182012979 dihydropteroate synthase; Region: DHPS; TIGR01496 651182012980 substrate binding pocket [chemical binding]; other site 651182012981 dimer interface [polypeptide binding]; other site 651182012982 inhibitor binding site; inhibition site 651182012983 FtsH Extracellular; Region: FtsH_ext; pfam06480 651182012984 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 651182012985 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 651182012986 Walker A motif; other site 651182012987 ATP binding site [chemical binding]; other site 651182012988 Walker B motif; other site 651182012989 arginine finger; other site 651182012990 Peptidase family M41; Region: Peptidase_M41; pfam01434 651182012991 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 651182012992 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 651182012993 Ligand Binding Site [chemical binding]; other site 651182012994 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 651182012995 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 651182012996 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 651182012997 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 651182012998 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 651182012999 Phytochelatin synthase; Region: Phytochelatin; pfam05023 651182013000 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 651182013001 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 651182013002 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 651182013003 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 651182013004 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 651182013005 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 651182013006 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182013007 histidine kinase; Provisional; Region: PRK13557 651182013008 putative active site [active] 651182013009 heme pocket [chemical binding]; other site 651182013010 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 651182013011 dimer interface [polypeptide binding]; other site 651182013012 phosphorylation site [posttranslational modification] 651182013013 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 651182013014 ATP binding site [chemical binding]; other site 651182013015 Mg2+ binding site [ion binding]; other site 651182013016 G-X-G motif; other site 651182013017 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013018 active site 651182013019 phosphorylation site [posttranslational modification] 651182013020 intermolecular recognition site; other site 651182013021 dimerization interface [polypeptide binding]; other site 651182013022 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 651182013023 Transglycosylase; Region: Transgly; pfam00912 651182013024 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 651182013025 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 651182013026 TPR motif; other site 651182013027 binding surface 651182013028 PAS domain; Region: PAS_9; pfam13426 651182013029 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182013030 PAS fold; Region: PAS_3; pfam08447 651182013031 putative active site [active] 651182013032 heme pocket [chemical binding]; other site 651182013033 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 651182013034 dimer interface [polypeptide binding]; other site 651182013035 phosphorylation site [posttranslational modification] 651182013036 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 651182013037 ATP binding site [chemical binding]; other site 651182013038 Mg2+ binding site [ion binding]; other site 651182013039 G-X-G motif; other site 651182013040 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182013041 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013042 active site 651182013043 phosphorylation site [posttranslational modification] 651182013044 intermolecular recognition site; other site 651182013045 dimerization interface [polypeptide binding]; other site 651182013046 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 651182013047 hypothetical protein; Provisional; Region: PRK05255 651182013048 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 651182013049 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 651182013050 homodimer interface [polypeptide binding]; other site 651182013051 substrate-cofactor binding pocket; other site 651182013052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182013053 catalytic residue [active] 651182013054 Membrane transport protein; Region: Mem_trans; pfam03547 651182013055 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 651182013056 dimerization interface [polypeptide binding]; other site 651182013057 putative DNA binding site [nucleotide binding]; other site 651182013058 putative Zn2+ binding site [ion binding]; other site 651182013059 Predicted permeases [General function prediction only]; Region: COG0701 651182013060 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 651182013061 DGC domain; Region: DGC; pfam08859 651182013062 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 651182013063 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 651182013064 catalytic residues [active] 651182013065 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 651182013066 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 651182013067 Putative Fe-S cluster; Region: FeS; cl17515 651182013068 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 651182013069 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 651182013070 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 651182013071 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 651182013072 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 651182013073 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 651182013074 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 651182013075 ABC transporter; Region: ABC_tran; pfam00005 651182013076 Q-loop/lid; other site 651182013077 ABC transporter signature motif; other site 651182013078 Walker B; other site 651182013079 D-loop; other site 651182013080 H-loop/switch region; other site 651182013081 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 651182013082 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 651182013083 dimer interface [polypeptide binding]; other site 651182013084 conserved gate region; other site 651182013085 putative PBP binding loops; other site 651182013086 ABC-ATPase subunit interface; other site 651182013087 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 651182013088 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 651182013089 N-terminal plug; other site 651182013090 ligand-binding site [chemical binding]; other site 651182013091 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 651182013092 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 651182013093 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 651182013094 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 651182013095 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 651182013096 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 651182013097 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 651182013098 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 651182013099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 651182013100 Domain of unknown function (DUF1846); Region: DUF1846; pfam08903 651182013101 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182013102 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 651182013103 dimer interface [polypeptide binding]; other site 651182013104 phosphorylation site [posttranslational modification] 651182013105 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 651182013106 ATP binding site [chemical binding]; other site 651182013107 Mg2+ binding site [ion binding]; other site 651182013108 G-X-G motif; other site 651182013109 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182013110 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013111 active site 651182013112 phosphorylation site [posttranslational modification] 651182013113 intermolecular recognition site; other site 651182013114 dimerization interface [polypeptide binding]; other site 651182013115 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 651182013116 Walker A motif; other site 651182013117 ATP binding site [chemical binding]; other site 651182013118 Walker B motif; other site 651182013119 arginine finger; other site 651182013120 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182013121 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 651182013122 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 651182013123 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 651182013124 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 651182013125 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 651182013126 Walker A/P-loop; other site 651182013127 ATP binding site [chemical binding]; other site 651182013128 Q-loop/lid; other site 651182013129 ABC transporter signature motif; other site 651182013130 Walker B; other site 651182013131 D-loop; other site 651182013132 H-loop/switch region; other site 651182013133 PAS domain; Region: PAS_9; pfam13426 651182013134 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182013135 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 651182013136 dimer interface [polypeptide binding]; other site 651182013137 phosphorylation site [posttranslational modification] 651182013138 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 651182013139 ATP binding site [chemical binding]; other site 651182013140 Mg2+ binding site [ion binding]; other site 651182013141 G-X-G motif; other site 651182013142 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182013143 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013144 active site 651182013145 phosphorylation site [posttranslational modification] 651182013146 intermolecular recognition site; other site 651182013147 dimerization interface [polypeptide binding]; other site 651182013148 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 651182013149 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 651182013150 putative dimer interface [polypeptide binding]; other site 651182013151 active site pocket [active] 651182013152 putative cataytic base [active] 651182013153 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 651182013154 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 651182013155 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 651182013156 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 651182013157 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182013158 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 651182013159 histidinol dehydrogenase; Region: hisD; TIGR00069 651182013160 NAD binding site [chemical binding]; other site 651182013161 dimerization interface [polypeptide binding]; other site 651182013162 product binding site; other site 651182013163 substrate binding site [chemical binding]; other site 651182013164 zinc binding site [ion binding]; other site 651182013165 catalytic residues [active] 651182013166 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 651182013167 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 651182013168 dimer interface [polypeptide binding]; other site 651182013169 motif 1; other site 651182013170 active site 651182013171 motif 2; other site 651182013172 motif 3; other site 651182013173 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 651182013174 anticodon binding site; other site 651182013175 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 651182013176 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 651182013177 dimer interface [polypeptide binding]; other site 651182013178 anticodon binding site; other site 651182013179 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 651182013180 homodimer interface [polypeptide binding]; other site 651182013181 motif 1; other site 651182013182 active site 651182013183 motif 2; other site 651182013184 GAD domain; Region: GAD; pfam02938 651182013185 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 651182013186 active site 651182013187 motif 3; other site 651182013188 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 651182013189 intermolecular recognition site; other site 651182013190 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 651182013191 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 651182013192 active site 651182013193 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 651182013194 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 651182013195 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 651182013196 Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]; Region: GlyA; COG0112 651182013197 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 651182013198 catalytic residue [active] 651182013199 Nif-specific regulatory protein; Region: nifA; TIGR01817 651182013200 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 651182013201 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 651182013202 Walker A motif; other site 651182013203 ATP binding site [chemical binding]; other site 651182013204 Walker B motif; other site 651182013205 arginine finger; other site 651182013206 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182013207 GAF domain; Region: GAF_2; pfam13185 651182013208 GAF domain; Region: GAF; pfam01590 651182013209 PAS domain; Region: PAS_8; pfam13188 651182013210 PAS domain; Region: PAS_9; pfam13426 651182013211 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 651182013212 dimer interface [polypeptide binding]; other site 651182013213 phosphorylation site [posttranslational modification] 651182013214 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 651182013215 homotrimer interface [polypeptide binding]; other site 651182013216 Walker A motif; other site 651182013217 GTP binding site [chemical binding]; other site 651182013218 Walker B motif; other site 651182013219 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 651182013220 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 651182013221 FeS/SAM binding site; other site 651182013222 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 651182013223 putative DNA binding site [nucleotide binding]; other site 651182013224 putative Zn2+ binding site [ion binding]; other site 651182013225 cobalamin synthase; Reviewed; Region: cobS; PRK00235 651182013226 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 651182013227 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 651182013228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182013229 homodimer interface [polypeptide binding]; other site 651182013230 catalytic residue [active] 651182013231 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 651182013232 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 651182013233 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 651182013234 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 651182013235 ligand binding site [chemical binding]; other site 651182013236 flexible hinge region; other site 651182013237 penicillin-binding protein 1b; Provisional; Region: PRK14850 651182013238 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 651182013239 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 651182013240 prolyl-tRNA synthetase; Provisional; Region: PRK08661 651182013241 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 651182013242 dimer interface [polypeptide binding]; other site 651182013243 motif 1; other site 651182013244 active site 651182013245 motif 2; other site 651182013246 motif 3; other site 651182013247 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 651182013248 anticodon binding site; other site 651182013249 zinc-binding site [ion binding]; other site 651182013250 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 651182013251 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182013252 Zn2+ binding site [ion binding]; other site 651182013253 Mg2+ binding site [ion binding]; other site 651182013254 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 651182013255 synthetase active site [active] 651182013256 NTP binding site [chemical binding]; other site 651182013257 metal binding site [ion binding]; metal-binding site 651182013258 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 651182013259 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 651182013260 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 651182013261 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 651182013262 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 651182013263 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 651182013264 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 651182013265 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182013266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013267 active site 651182013268 phosphorylation site [posttranslational modification] 651182013269 intermolecular recognition site; other site 651182013270 dimerization interface [polypeptide binding]; other site 651182013271 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182013272 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182013273 metal binding site [ion binding]; metal-binding site 651182013274 active site 651182013275 I-site; other site 651182013276 glutamate racemase; Provisional; Region: PRK00865 651182013277 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182013278 Zn2+ binding site [ion binding]; other site 651182013279 Mg2+ binding site [ion binding]; other site 651182013280 PCRF domain; Region: PCRF; pfam03462 651182013281 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 651182013282 RF-1 domain; Region: RF-1; pfam00472 651182013283 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 651182013284 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 651182013285 putative active site [active] 651182013286 catalytic triad [active] 651182013287 putative dimer interface [polypeptide binding]; other site 651182013288 PAS fold; Region: PAS; pfam00989 651182013289 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182013290 putative active site [active] 651182013291 heme pocket [chemical binding]; other site 651182013292 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 651182013293 dimer interface [polypeptide binding]; other site 651182013294 phosphorylation site [posttranslational modification] 651182013295 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 651182013296 ATP binding site [chemical binding]; other site 651182013297 Mg2+ binding site [ion binding]; other site 651182013298 G-X-G motif; other site 651182013299 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013300 active site 651182013301 phosphorylation site [posttranslational modification] 651182013302 intermolecular recognition site; other site 651182013303 dimerization interface [polypeptide binding]; other site 651182013304 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 651182013305 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 651182013306 putative dimer interface [polypeptide binding]; other site 651182013307 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 651182013308 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 651182013309 Walker A motif; other site 651182013310 ATP binding site [chemical binding]; other site 651182013311 Walker B motif; other site 651182013312 arginine finger; other site 651182013313 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 651182013314 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 651182013315 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 651182013316 Sporulation related domain; Region: SPOR; pfam05036 651182013317 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 651182013318 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 651182013319 active site 651182013320 motif I; other site 651182013321 motif II; other site 651182013322 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 651182013323 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 651182013324 Walker A motif; other site 651182013325 ATP binding site [chemical binding]; other site 651182013326 Walker B motif; other site 651182013327 Family description; Region: UvrD_C_2; pfam13538 651182013328 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 651182013329 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 651182013330 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 651182013331 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 651182013332 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 651182013333 binding surface 651182013334 TPR motif; other site 651182013335 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 651182013336 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 651182013337 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 651182013338 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 651182013339 NMT1-like family; Region: NMT1_2; pfam13379 651182013340 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 651182013341 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 651182013342 dimer interface [polypeptide binding]; other site 651182013343 conserved gate region; other site 651182013344 putative PBP binding loops; other site 651182013345 ABC-ATPase subunit interface; other site 651182013346 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 651182013347 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 651182013348 Walker A/P-loop; other site 651182013349 ATP binding site [chemical binding]; other site 651182013350 Q-loop/lid; other site 651182013351 ABC transporter signature motif; other site 651182013352 Walker B; other site 651182013353 D-loop; other site 651182013354 H-loop/switch region; other site 651182013355 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 651182013356 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 651182013357 dimerization interface 3.5A [polypeptide binding]; other site 651182013358 active site 651182013359 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 651182013360 PhoH-like protein; Region: PhoH; pfam02562 651182013361 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 651182013362 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 651182013363 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 651182013364 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 651182013365 Walker A/P-loop; other site 651182013366 ATP binding site [chemical binding]; other site 651182013367 Q-loop/lid; other site 651182013368 ABC transporter signature motif; other site 651182013369 Walker B; other site 651182013370 D-loop; other site 651182013371 H-loop/switch region; other site 651182013372 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 651182013373 HlyD family secretion protein; Region: HlyD_3; pfam13437 651182013374 Outer membrane efflux protein; Region: OEP; pfam02321 651182013375 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 651182013376 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 651182013377 dimer interface [polypeptide binding]; other site 651182013378 decamer (pentamer of dimers) interface [polypeptide binding]; other site 651182013379 catalytic triad [active] 651182013380 peroxidatic and resolving cysteines [active] 651182013381 Cache domain; Region: Cache_1; pfam02743 651182013382 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 651182013383 HAMP domain; Region: HAMP; pfam00672 651182013384 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182013385 putative active site [active] 651182013386 heme pocket [chemical binding]; other site 651182013387 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 651182013388 dimer interface [polypeptide binding]; other site 651182013389 phosphorylation site [posttranslational modification] 651182013390 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 651182013391 ATP binding site [chemical binding]; other site 651182013392 Mg2+ binding site [ion binding]; other site 651182013393 G-X-G motif; other site 651182013394 Response regulator receiver domain; Region: Response_reg; pfam00072 651182013395 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013396 active site 651182013397 phosphorylation site [posttranslational modification] 651182013398 intermolecular recognition site; other site 651182013399 dimerization interface [polypeptide binding]; other site 651182013400 GAF domain; Region: GAF; pfam01590 651182013401 GAF domain; Region: GAF_2; pfam13185 651182013402 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 651182013403 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 651182013404 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 651182013405 DNA binding residues [nucleotide binding] 651182013406 glutamate dehydrogenase; Provisional; Region: PRK09414 651182013407 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 651182013408 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 651182013409 NAD(P) binding site [chemical binding]; other site 651182013410 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182013411 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 651182013412 exonuclease SbcC; Region: sbcc; TIGR00618 651182013413 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182013414 Walker A/P-loop; other site 651182013415 ATP binding site [chemical binding]; other site 651182013416 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 651182013417 ABC transporter signature motif; other site 651182013418 Walker B; other site 651182013419 D-loop; other site 651182013420 H-loop/switch region; other site 651182013421 exonuclease subunit SbcD; Provisional; Region: PRK10966 651182013422 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 651182013423 active site 651182013424 metal binding site [ion binding]; metal-binding site 651182013425 DNA binding site [nucleotide binding] 651182013426 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 651182013427 4Fe-4S binding domain; Region: Fer4; pfam00037 651182013428 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182013429 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 651182013430 4Fe-4S binding domain; Region: Fer4; pfam00037 651182013431 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 651182013432 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013433 active site 651182013434 phosphorylation site [posttranslational modification] 651182013435 intermolecular recognition site; other site 651182013436 dimerization interface [polypeptide binding]; other site 651182013437 Tetratricopeptide repeat; Region: TPR_16; pfam13432 651182013438 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 651182013439 TPR motif; other site 651182013440 binding surface 651182013441 VCBS repeat; Region: VCBS_repeat; TIGR01965 651182013442 VCBS repeat; Region: VCBS_repeat; TIGR01965 651182013443 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 651182013444 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182013445 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 651182013446 dimer interface [polypeptide binding]; other site 651182013447 phosphorylation site [posttranslational modification] 651182013448 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 651182013449 ATP binding site [chemical binding]; other site 651182013450 Mg2+ binding site [ion binding]; other site 651182013451 G-X-G motif; other site 651182013452 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182013453 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013454 active site 651182013455 phosphorylation site [posttranslational modification] 651182013456 intermolecular recognition site; other site 651182013457 dimerization interface [polypeptide binding]; other site 651182013458 PAS fold; Region: PAS; pfam00989 651182013459 argininosuccinate synthase; Provisional; Region: PRK13820 651182013460 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 651182013461 ANP binding site [chemical binding]; other site 651182013462 Substrate Binding Site II [chemical binding]; other site 651182013463 Substrate Binding Site I [chemical binding]; other site 651182013464 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 651182013465 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 651182013466 Walker A motif; other site 651182013467 ATP binding site [chemical binding]; other site 651182013468 Walker B motif; other site 651182013469 arginine finger; other site 651182013470 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182013471 phage shock protein A; Region: phageshock_pspA; TIGR02977 651182013472 Phage shock protein B; Region: PspB; cl05946 651182013473 phage shock protein C; Region: phageshock_pspC; TIGR02978 651182013474 PspC domain; Region: PspC; pfam04024 651182013475 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 651182013476 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 651182013477 catalytic site [active] 651182013478 hypothetical protein; Provisional; Region: PRK01617 651182013479 SEC-C motif; Region: SEC-C; pfam02810 651182013480 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 651182013481 AzlC protein; Region: AzlC; pfam03591 651182013482 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 651182013483 dinuclear metal binding motif [ion binding]; other site 651182013484 cyclase homology domain; Region: CHD; cd07302 651182013485 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 651182013486 nucleotidyl binding site; other site 651182013487 metal binding site [ion binding]; metal-binding site 651182013488 dimer interface [polypeptide binding]; other site 651182013489 Hemerythrin; Region: Hemerythrin; cd12107 651182013490 Fe binding site [ion binding]; other site 651182013491 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 651182013492 putative chaperone; Provisional; Region: PRK11678 651182013493 nucleotide binding site [chemical binding]; other site 651182013494 putative NEF/HSP70 interaction site [polypeptide binding]; other site 651182013495 SBD interface [polypeptide binding]; other site 651182013496 Uncharacterized conserved protein [Function unknown]; Region: COG1683 651182013497 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 651182013498 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 651182013499 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 651182013500 active site 651182013501 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 651182013502 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 651182013503 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 651182013504 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 651182013505 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 651182013506 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182013507 PAS domain; Region: PAS_9; pfam13426 651182013508 putative active site [active] 651182013509 heme pocket [chemical binding]; other site 651182013510 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 651182013511 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 651182013512 Walker A motif; other site 651182013513 ATP binding site [chemical binding]; other site 651182013514 Walker B motif; other site 651182013515 arginine finger; other site 651182013516 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 651182013517 DNA-binding interface [nucleotide binding]; DNA binding site 651182013518 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 651182013519 DNA-binding site [nucleotide binding]; DNA binding site 651182013520 RNA-binding motif; other site 651182013521 Uncharacterized conserved protein [Function unknown]; Region: COG0398 651182013522 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 651182013523 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 651182013524 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 651182013525 active site residue [active] 651182013526 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 651182013527 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182013528 Cysteine-rich domain; Region: CCG; pfam02754 651182013529 Uncharacterized conserved protein [Function unknown]; Region: COG0398 651182013530 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 651182013531 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 651182013532 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 651182013533 dimer interface [polypeptide binding]; other site 651182013534 PYR/PP interface [polypeptide binding]; other site 651182013535 TPP binding site [chemical binding]; other site 651182013536 substrate binding site [chemical binding]; other site 651182013537 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 651182013538 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 651182013539 Domain of unknown function; Region: EKR; pfam10371 651182013540 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 651182013541 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 651182013542 TPP-binding site [chemical binding]; other site 651182013543 dimer interface [polypeptide binding]; other site 651182013544 putative peptidase; Provisional; Region: PRK11649 651182013545 Peptidase family M23; Region: Peptidase_M23; pfam01551 651182013546 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 651182013547 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 651182013548 acyl-activating enzyme (AAE) consensus motif; other site 651182013549 AMP binding site [chemical binding]; other site 651182013550 active site 651182013551 CoA binding site [chemical binding]; other site 651182013552 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 651182013553 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182013554 4Fe-4S binding domain; Region: Fer4; pfam00037 651182013555 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 651182013556 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 651182013557 dimer interface [polypeptide binding]; other site 651182013558 PYR/PP interface [polypeptide binding]; other site 651182013559 TPP binding site [chemical binding]; other site 651182013560 substrate binding site [chemical binding]; other site 651182013561 2-ketoisovalerate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11864 651182013562 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 651182013563 TPP-binding site [chemical binding]; other site 651182013564 putative dimer interface [polypeptide binding]; other site 651182013565 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 651182013566 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 651182013567 PAS fold; Region: PAS_4; pfam08448 651182013568 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182013569 PAS domain; Region: PAS_9; pfam13426 651182013570 putative active site [active] 651182013571 heme pocket [chemical binding]; other site 651182013572 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182013573 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 651182013574 dimer interface [polypeptide binding]; other site 651182013575 phosphorylation site [posttranslational modification] 651182013576 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 651182013577 ATP binding site [chemical binding]; other site 651182013578 Mg2+ binding site [ion binding]; other site 651182013579 G-X-G motif; other site 651182013580 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182013581 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013582 active site 651182013583 phosphorylation site [posttranslational modification] 651182013584 intermolecular recognition site; other site 651182013585 dimerization interface [polypeptide binding]; other site 651182013586 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 651182013587 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 651182013588 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 651182013589 FeS/SAM binding site; other site 651182013590 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; cl15377 651182013591 Cache domain; Region: Cache_1; pfam02743 651182013592 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182013593 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182013594 metal binding site [ion binding]; metal-binding site 651182013595 active site 651182013596 I-site; other site 651182013597 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 651182013598 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 651182013599 Protein export membrane protein; Region: SecD_SecF; cl14618 651182013600 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 651182013601 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 651182013602 HlyD family secretion protein; Region: HlyD_3; pfam13437 651182013603 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 651182013604 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 651182013605 metal binding site [ion binding]; metal-binding site 651182013606 active site 651182013607 I-site; other site 651182013608 imidazole glycerol phosphate synthase hisHF; Region: PLN02617 651182013609 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 651182013610 putative active site [active] 651182013611 oxyanion strand; other site 651182013612 catalytic triad [active] 651182013613 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 651182013614 substrate binding site [chemical binding]; other site 651182013615 glutamase interaction surface [polypeptide binding]; other site 651182013616 Predicted archaeal methyltransferase [General function prediction only]; Region: COG2521 651182013617 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 651182013618 S-adenosylmethionine binding site [chemical binding]; other site 651182013619 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 651182013620 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 651182013621 putative dimer interface [polypeptide binding]; other site 651182013622 putative anticodon binding site; other site 651182013623 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 651182013624 homodimer interface [polypeptide binding]; other site 651182013625 motif 1; other site 651182013626 motif 2; other site 651182013627 active site 651182013628 motif 3; other site 651182013629 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 651182013630 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 651182013631 B12 binding site [chemical binding]; other site 651182013632 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 651182013633 FeS/SAM binding site; other site 651182013634 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 651182013635 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 651182013636 ribonuclease G; Provisional; Region: PRK11712 651182013637 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 651182013638 homodimer interface [polypeptide binding]; other site 651182013639 oligonucleotide binding site [chemical binding]; other site 651182013640 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 651182013641 Ribonuclease P; Region: Ribonuclease_P; pfam00825 651182013642 Haemolytic domain; Region: Haemolytic; pfam01809 651182013643 membrane protein insertase, YidC/Oxa1 family, N-terminal domain; Region: yidC_nterm; TIGR03593 651182013644 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 651182013645 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 651182013646 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 651182013647 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 651182013648 G-X-X-G motif; other site 651182013649 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 651182013650 RxxxH motif; other site 651182013651 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 651182013652 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 651182013653 trmE is a tRNA modification GTPase; Region: trmE; cd04164 651182013654 G1 box; other site 651182013655 GTP/Mg2+ binding site [chemical binding]; other site 651182013656 Switch I region; other site 651182013657 G2 box; other site 651182013658 Switch II region; other site 651182013659 G3 box; other site 651182013660 G4 box; other site 651182013661 G5 box; other site 651182013662 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 651182013663 Flagellin N-methylase; Region: FliB; cl00497 651182013664 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 651182013665 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 651182013666 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 651182013667 Staphylococcal nuclease homologues; Region: SNc; smart00318 651182013668 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 651182013669 Catalytic site; other site 651182013670 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 651182013671 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 651182013672 dimer interface [polypeptide binding]; other site 651182013673 ssDNA binding site [nucleotide binding]; other site 651182013674 tetramer (dimer of dimers) interface [polypeptide binding]; other site 651182013675 Predicted transcriptional regulators [Transcription]; Region: COG1378 651182013676 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 651182013677 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 651182013678 C-terminal domain interface [polypeptide binding]; other site 651182013679 sugar binding site [chemical binding]; other site 651182013680 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 651182013681 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 651182013682 inhibitor-cofactor binding pocket; inhibition site 651182013683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182013684 catalytic residue [active] 651182013685 Hemerythrin; Region: Hemerythrin; cd12107 651182013686 Fe binding site [ion binding]; other site 651182013687 Response regulator receiver domain; Region: Response_reg; pfam00072 651182013688 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013689 active site 651182013690 phosphorylation site [posttranslational modification] 651182013691 intermolecular recognition site; other site 651182013692 dimerization interface [polypeptide binding]; other site 651182013693 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 651182013694 GAF domain; Region: GAF; cl17456 651182013695 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182013696 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 651182013697 putative active site [active] 651182013698 heme pocket [chemical binding]; other site 651182013699 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 651182013700 dimer interface [polypeptide binding]; other site 651182013701 phosphorylation site [posttranslational modification] 651182013702 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 651182013703 ATP binding site [chemical binding]; other site 651182013704 Mg2+ binding site [ion binding]; other site 651182013705 G-X-G motif; other site 651182013706 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182013707 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013708 active site 651182013709 phosphorylation site [posttranslational modification] 651182013710 intermolecular recognition site; other site 651182013711 dimerization interface [polypeptide binding]; other site 651182013712 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182013713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013714 active site 651182013715 phosphorylation site [posttranslational modification] 651182013716 intermolecular recognition site; other site 651182013717 dimerization interface [polypeptide binding]; other site 651182013718 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 651182013719 Walker A motif; other site 651182013720 ATP binding site [chemical binding]; other site 651182013721 Walker B motif; other site 651182013722 arginine finger; other site 651182013723 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182013724 dimer interface [polypeptide binding]; other site 651182013725 putative CheW interface [polypeptide binding]; other site 651182013726 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 651182013727 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 651182013728 Nitrogen regulatory protein P-II; Region: P-II; smart00938 651182013729 Nitrogen regulatory protein P-II; Region: P-II; cl00412 651182013730 FOG: CBS domain [General function prediction only]; Region: COG0517 651182013731 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_17; cd04630 651182013732 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 651182013733 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 651182013734 N-terminal plug; other site 651182013735 ligand-binding site [chemical binding]; other site 651182013736 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 651182013737 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 651182013738 DNA-binding site [nucleotide binding]; DNA binding site 651182013739 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 651182013740 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 651182013741 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 651182013742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 651182013743 catalytic residue [active] 651182013744 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 651182013745 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 651182013746 substrate binding site [chemical binding]; other site 651182013747 active site 651182013748 catalytic residues [active] 651182013749 heterodimer interface [polypeptide binding]; other site 651182013750 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 651182013751 Capsule biosynthesis CapC; Region: Caps_synth_CapC; pfam14102 651182013752 Capsule biosynthesis CapC; Region: Caps_synth_CapC; cl14855 651182013753 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 651182013754 CHASE2 domain; Region: CHASE2; cl01732 651182013755 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182013756 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 651182013757 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 651182013758 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182013759 Walker A/P-loop; other site 651182013760 ATP binding site [chemical binding]; other site 651182013761 Q-loop/lid; other site 651182013762 ABC transporter signature motif; other site 651182013763 Walker B; other site 651182013764 D-loop; other site 651182013765 H-loop/switch region; other site 651182013766 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 651182013767 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 651182013768 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182013769 Walker A/P-loop; other site 651182013770 ATP binding site [chemical binding]; other site 651182013771 Q-loop/lid; other site 651182013772 ABC transporter signature motif; other site 651182013773 Walker B; other site 651182013774 D-loop; other site 651182013775 H-loop/switch region; other site 651182013776 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 651182013777 catalytic loop [active] 651182013778 iron binding site [ion binding]; other site 651182013779 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182013780 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 651182013781 dimer interface [polypeptide binding]; other site 651182013782 [2Fe-2S] cluster binding site [ion binding]; other site 651182013783 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 651182013784 SLBB domain; Region: SLBB; pfam10531 651182013785 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 651182013786 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 651182013787 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 651182013788 putative DNA binding site [nucleotide binding]; other site 651182013789 putative Zn2+ binding site [ion binding]; other site 651182013790 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 651182013791 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 651182013792 putative dimer interface [polypeptide binding]; other site 651182013793 [2Fe-2S] cluster binding site [ion binding]; other site 651182013794 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182013795 4Fe-4S binding domain; Region: Fer4; pfam00037 651182013796 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182013797 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182013798 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182013799 4Fe-4S binding domain; Region: Fer4; cl02805 651182013800 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182013801 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 651182013802 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182013803 Cysteine-rich domain; Region: CCG; pfam02754 651182013804 Cysteine-rich domain; Region: CCG; pfam02754 651182013805 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 651182013806 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 651182013807 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 651182013808 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182013809 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 651182013810 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 651182013811 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 651182013812 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 651182013813 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 651182013814 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182013815 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 651182013816 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 651182013817 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182013818 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 651182013819 putative active site [active] 651182013820 heme pocket [chemical binding]; other site 651182013821 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182013822 putative active site [active] 651182013823 heme pocket [chemical binding]; other site 651182013824 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182013825 PAS fold; Region: PAS_3; pfam08447 651182013826 putative active site [active] 651182013827 heme pocket [chemical binding]; other site 651182013828 PAS domain; Region: PAS_9; pfam13426 651182013829 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 651182013830 dimer interface [polypeptide binding]; other site 651182013831 phosphorylation site [posttranslational modification] 651182013832 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 651182013833 ATP binding site [chemical binding]; other site 651182013834 Mg2+ binding site [ion binding]; other site 651182013835 G-X-G motif; other site 651182013836 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 651182013837 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013838 active site 651182013839 phosphorylation site [posttranslational modification] 651182013840 intermolecular recognition site; other site 651182013841 dimerization interface [polypeptide binding]; other site 651182013842 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 651182013843 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182013844 active site 651182013845 phosphorylation site [posttranslational modification] 651182013846 intermolecular recognition site; other site 651182013847 dimerization interface [polypeptide binding]; other site 651182013848 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 651182013849 Walker A motif; other site 651182013850 ATP binding site [chemical binding]; other site 651182013851 Walker B motif; other site 651182013852 arginine finger; other site 651182013853 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 651182013854 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 651182013855 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 651182013856 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 651182013857 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 651182013858 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 651182013859 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 651182013860 dimer interface [polypeptide binding]; other site 651182013861 substrate binding site [chemical binding]; other site 651182013862 metal binding site [ion binding]; metal-binding site 651182013863 phenylhydantoinase; Validated; Region: PRK08323 651182013864 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 651182013865 active site 651182013866 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 651182013867 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 651182013868 pyuvate ferredoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09624 651182013869 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 651182013870 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 651182013871 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 651182013872 dimer interface [polypeptide binding]; other site 651182013873 PYR/PP interface [polypeptide binding]; other site 651182013874 TPP binding site [chemical binding]; other site 651182013875 substrate binding site [chemical binding]; other site 651182013876 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 651182013877 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 651182013878 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 651182013879 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 651182013880 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 651182013881 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 651182013882 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 651182013883 TPP-binding site [chemical binding]; other site 651182013884 putative dimer interface [polypeptide binding]; other site 651182013885 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 651182013886 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 651182013887 molybdopterin cofactor binding site; other site 651182013888 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 651182013889 molybdopterin cofactor binding site; other site 651182013890 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 651182013891 4Fe-4S binding domain; Region: Fer4; cl02805 651182013892 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 651182013893 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 651182013894 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 651182013895 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 651182013896 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 651182013897 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 651182013898 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 651182013899 catalytic loop [active] 651182013900 iron binding site [ion binding]; other site 651182013901 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 651182013902 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 651182013903 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 651182013904 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 651182013905 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 651182013906 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 651182013907 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 651182013908 putative MPT binding site; other site 651182013909 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 651182013910 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 651182013911 dimer interface [polypeptide binding]; other site 651182013912 putative CheW interface [polypeptide binding]; other site 651182013913 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 651182013914 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 651182013915 dimer interface [polypeptide binding]; other site 651182013916 putative functional site; other site 651182013917 putative MPT binding site; other site 651182013918 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 651182013919 putative MPT binding site; other site 651182013920 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 651182013921 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 651182013922 Walker A motif; other site 651182013923 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 651182013924 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 651182013925 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 651182013926 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182013927 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182013928 Ferredoxin [Energy production and conversion]; Region: COG1146 651182013929 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 651182013930 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 651182013931 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 651182013932 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 651182013933 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 651182013934 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 651182013935 N-terminal plug; other site 651182013936 ligand-binding site [chemical binding]; other site 651182013937 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 651182013938 S-adenosylmethionine binding site [chemical binding]; other site 651182013939 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 651182013940 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 651182013941 putative metal binding site [ion binding]; other site 651182013942 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 651182013943 AAA domain; Region: AAA_30; pfam13604 651182013944 Family description; Region: UvrD_C_2; pfam13538 651182013945 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 651182013946 Part of AAA domain; Region: AAA_19; pfam13245 651182013947 Family description; Region: UvrD_C_2; pfam13538 651182013948 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 651182013949 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 651182013950 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 651182013951 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 651182013952 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 651182013953 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 651182013954 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 651182013955 FMN binding site [chemical binding]; other site 651182013956 active site 651182013957 substrate binding site [chemical binding]; other site 651182013958 catalytic residue [active] 651182013959 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 651182013960 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 651182013961 N-terminal plug; other site 651182013962 ligand-binding site [chemical binding]; other site 651182013963 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 651182013964 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 651182013965 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 651182013966 ResB-like family; Region: ResB; pfam05140 651182013967 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 651182013968 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 651182013969 intersubunit interface [polypeptide binding]; other site 651182013970 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 651182013971 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 651182013972 ABC-ATPase subunit interface; other site 651182013973 dimer interface [polypeptide binding]; other site 651182013974 putative PBP binding regions; other site 651182013975 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 651182013976 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 651182013977 Walker A/P-loop; other site 651182013978 ATP binding site [chemical binding]; other site 651182013979 Q-loop/lid; other site 651182013980 ABC transporter signature motif; other site 651182013981 Walker B; other site 651182013982 D-loop; other site 651182013983 H-loop/switch region; other site 651182013984 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 651182013985 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 651182013986 FeS/SAM binding site; other site 651182013987 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 651182013988 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 651182013989 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 651182013990 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 651182013991 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 651182013992 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 651182013993 N-terminal plug; other site 651182013994 ligand-binding site [chemical binding]; other site 651182013995 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 651182013996 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 651182013997 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 651182013998 metal ion-dependent adhesion site (MIDAS); other site 651182013999 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 651182014000 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 651182014001 Walker A motif; other site 651182014002 ATP binding site [chemical binding]; other site 651182014003 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 651182014004 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 651182014005 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182014006 Walker A/P-loop; other site 651182014007 ATP binding site [chemical binding]; other site 651182014008 Q-loop/lid; other site 651182014009 ABC transporter signature motif; other site 651182014010 Walker B; other site 651182014011 D-loop; other site 651182014012 H-loop/switch region; other site 651182014013 ABC-2 type transporter; Region: ABC2_membrane; cl17235 651182014014 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 651182014015 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 651182014016 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 651182014017 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 651182014018 active site 651182014019 catalytic triad [active] 651182014020 dimer interface [polypeptide binding]; other site 651182014021 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 651182014022 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 651182014023 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 651182014024 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 651182014025 active site 651182014026 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 651182014027 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 651182014028 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 651182014029 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 651182014030 Major Facilitator Superfamily; Region: MFS_1; pfam07690 651182014031 putative substrate translocation pore; other site 651182014032 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 651182014033 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 651182014034 NADP binding site [chemical binding]; other site 651182014035 dimer interface [polypeptide binding]; other site 651182014036 Uncharacterized protein conserved in bacteria (DUF2321); Region: DUF2321; pfam10083 651182014037 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 651182014038 heme-binding residues [chemical binding]; other site 651182014039 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 651182014040 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 651182014041 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 651182014042 FAD binding site [chemical binding]; other site 651182014043 PAS domain S-box; Region: sensory_box; TIGR00229 651182014044 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182014045 putative active site [active] 651182014046 heme pocket [chemical binding]; other site 651182014047 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 651182014048 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 651182014049 dimer interface [polypeptide binding]; other site 651182014050 phosphorylation site [posttranslational modification] 651182014051 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 651182014052 ATP binding site [chemical binding]; other site 651182014053 Mg2+ binding site [ion binding]; other site 651182014054 G-X-G motif; other site 651182014055 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182014056 active site 651182014057 phosphorylation site [posttranslational modification] 651182014058 intermolecular recognition site; other site 651182014059 dimerization interface [polypeptide binding]; other site 651182014060 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 651182014061 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182014062 putative active site [active] 651182014063 heme pocket [chemical binding]; other site 651182014064 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 651182014065 dimer interface [polypeptide binding]; other site 651182014066 phosphorylation site [posttranslational modification] 651182014067 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 651182014068 ATP binding site [chemical binding]; other site 651182014069 Mg2+ binding site [ion binding]; other site 651182014070 G-X-G motif; other site 651182014071 Response regulator receiver domain; Region: Response_reg; pfam00072 651182014072 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 651182014073 active site 651182014074 phosphorylation site [posttranslational modification] 651182014075 intermolecular recognition site; other site 651182014076 dimerization interface [polypeptide binding]; other site 651182014077 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 651182014078 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 651182014079 ligand binding site [chemical binding]; other site 651182014080 flexible hinge region; other site 651182014081 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 651182014082 putative switch regulator; other site 651182014083 non-specific DNA interactions [nucleotide binding]; other site 651182014084 DNA binding site [nucleotide binding] 651182014085 sequence specific DNA binding site [nucleotide binding]; other site 651182014086 putative cAMP binding site [chemical binding]; other site 651182014087 hybrid cluster protein; Provisional; Region: PRK05290 651182014088 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 651182014089 ACS interaction site; other site 651182014090 CODH interaction site; other site 651182014091 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 651182014092 hybrid metal cluster; other site 651182014093 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182014094 Zn2+ binding site [ion binding]; other site 651182014095 Mg2+ binding site [ion binding]; other site 651182014096 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 651182014097 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182014098 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 651182014099 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182014100 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 651182014101 Serpentine type 7TM GPCR chemoreceptor Srh; Region: 7TM_GPCR_Srh; cl11665 651182014102 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 651182014103 HlyD family secretion protein; Region: HlyD_3; pfam13437 651182014104 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 651182014105 Outer membrane efflux protein; Region: OEP; pfam02321 651182014106 Outer membrane efflux protein; Region: OEP; pfam02321 651182014107 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 651182014108 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 651182014109 ligand binding site [chemical binding]; other site 651182014110 Protein of unknown function (DUF1178); Region: DUF1178; cl17833 651182014111 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 651182014112 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 651182014113 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 651182014114 PhoU domain; Region: PhoU; pfam01895 651182014115 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 651182014116 B12 binding site [chemical binding]; other site 651182014117 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182014118 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 651182014119 FeS/SAM binding site; other site 651182014120 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 651182014121 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 651182014122 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 651182014123 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 651182014124 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 651182014125 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 651182014126 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 651182014127 DNA binding residues [nucleotide binding] 651182014128 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 651182014129 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182014130 AAA domain; Region: AAA_23; pfam13476 651182014131 Walker A/P-loop; other site 651182014132 ATP binding site [chemical binding]; other site 651182014133 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 651182014134 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 651182014135 active site 651182014136 DNA binding site [nucleotide binding] 651182014137 Int/Topo IB signature motif; other site 651182014138 Helix-turn-helix domain; Region: HTH_17; pfam12728 651182014139 BRO family, N-terminal domain; Region: Bro-N; smart01040 651182014140 CHC2 zinc finger; Region: zf-CHC2; cl17510 651182014141 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 651182014142 active site 651182014143 metal binding site [ion binding]; metal-binding site 651182014144 interdomain interaction site; other site 651182014145 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 651182014146 Walker A motif; other site 651182014147 ATP binding site [chemical binding]; other site 651182014148 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 651182014149 ATP binding site [chemical binding]; other site 651182014150 putative Mg++ binding site [ion binding]; other site 651182014151 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 651182014152 protein-splicing catalytic site; other site 651182014153 thioester formation/cholesterol transfer; other site 651182014154 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 651182014155 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 651182014156 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 651182014157 nucleotide binding region [chemical binding]; other site 651182014158 ATP-binding site [chemical binding]; other site 651182014159 HTH domain; Region: HTH_11; cl17392 651182014160 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 651182014161 IHF dimer interface [polypeptide binding]; other site 651182014162 IHF - DNA interface [nucleotide binding]; other site 651182014163 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 651182014164 Putative transposase; Region: Y2_Tnp; pfam04986 651182014165 integron integrase; Region: integrase_gron; TIGR02249 651182014166 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 651182014167 active site 651182014168 DNA binding site [nucleotide binding] 651182014169 Int/Topo IB signature motif; other site 651182014170 TIR domain; Region: TIR_2; pfam13676 651182014171 AAA domain; Region: AAA_31; pfam13614 651182014172 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 651182014173 P-loop; other site 651182014174 Magnesium ion binding site [ion binding]; other site 651182014175 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 651182014176 Magnesium ion binding site [ion binding]; other site 651182014177 Helix-turn-helix domain; Region: HTH_36; pfam13730 651182014178 Transglycosylase SLT domain; Region: SLT_2; pfam13406 651182014179 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 651182014180 N-acetyl-D-glucosamine binding site [chemical binding]; other site 651182014181 catalytic residue [active] 651182014182 glutamine synthetase, type I; Region: GlnA; TIGR00653 651182014183 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 651182014184 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 651182014185 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 651182014186 Nitrogen regulatory protein P-II; Region: P-II; smart00938 651182014187 PII uridylyl-transferase; Provisional; Region: PRK05092 651182014188 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 651182014189 metal binding triad; other site 651182014190 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 651182014191 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 651182014192 Zn2+ binding site [ion binding]; other site 651182014193 Mg2+ binding site [ion binding]; other site 651182014194 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 651182014195 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 651182014196 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 651182014197 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 651182014198 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 651182014199 Walker A motif; other site 651182014200 ATP binding site [chemical binding]; other site 651182014201 Walker B motif; other site 651182014202 arginine finger; other site 651182014203 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 651182014204 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 651182014205 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 651182014206 active site 651182014207 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 651182014208 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 651182014209 Walker A/P-loop; other site 651182014210 ATP binding site [chemical binding]; other site 651182014211 Q-loop/lid; other site 651182014212 ABC transporter signature motif; other site 651182014213 Walker B; other site 651182014214 D-loop; other site 651182014215 H-loop/switch region; other site 651182014216 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 651182014217 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 651182014218 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 651182014219 Peptidase family M23; Region: Peptidase_M23; pfam01551 651182014220 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 651182014221 C-terminal peptidase (prc); Region: prc; TIGR00225 651182014222 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 651182014223 protein binding site [polypeptide binding]; other site 651182014224 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 651182014225 Catalytic dyad [active] 651182014226 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 651182014227 putative active site [active] 651182014228 NodB motif; other site 651182014229 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 651182014230 nudix motif; other site 651182014231 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 651182014232 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 651182014233 CoA binding domain; Region: CoA_binding_2; pfam13380 651182014234 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 651182014235 helicase 45; Provisional; Region: PTZ00424 651182014236 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 651182014237 ATP binding site [chemical binding]; other site 651182014238 Mg++ binding site [ion binding]; other site 651182014239 motif III; other site 651182014240 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 651182014241 nucleotide binding region [chemical binding]; other site 651182014242 ATP-binding site [chemical binding]; other site 651182014243 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 651182014244 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 651182014245 non-specific DNA binding site [nucleotide binding]; other site 651182014246 salt bridge; other site 651182014247 sequence-specific DNA binding site [nucleotide binding]; other site 651182014248 PBP superfamily domain; Region: PBP_like; pfam12727 651182014249 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 651182014250 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 651182014251 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 651182014252 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 651182014253 dimer interface [polypeptide binding]; other site 651182014254 conserved gate region; other site 651182014255 putative PBP binding loops; other site 651182014256 ABC-ATPase subunit interface; other site 651182014257 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182014258 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 651182014259 Walker A/P-loop; other site 651182014260 ATP binding site [chemical binding]; other site 651182014261 Q-loop/lid; other site 651182014262 ABC transporter signature motif; other site 651182014263 Walker B; other site 651182014264 D-loop; other site 651182014265 H-loop/switch region; other site 651182014266 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 651182014267 Radical SAM superfamily; Region: Radical_SAM; pfam04055 651182014268 FeS/SAM binding site; other site 651182014269 amidophosphoribosyltransferase; Provisional; Region: PRK05793 651182014270 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 651182014271 active site 651182014272 tetramer interface [polypeptide binding]; other site 651182014273 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 651182014274 active site 651182014275 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 651182014276 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 651182014277 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 651182014278 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 651182014279 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 651182014280 ATP-grasp domain; Region: ATP-grasp_4; cl17255 651182014281 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 651182014282 IMP binding site; other site 651182014283 dimer interface [polypeptide binding]; other site 651182014284 interdomain contacts; other site 651182014285 partial ornithine binding site; other site 651182014286 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 651182014287 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 651182014288 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 651182014289 catalytic site [active] 651182014290 subunit interface [polypeptide binding]; other site 651182014291 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 651182014292 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 651182014293 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 651182014294 TPP-binding site [chemical binding]; other site 651182014295 dimer interface [polypeptide binding]; other site 651182014296 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 651182014297 PYR/PP interface [polypeptide binding]; other site 651182014298 dimer interface [polypeptide binding]; other site 651182014299 TPP binding site [chemical binding]; other site 651182014300 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 651182014301 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 651182014302 heat shock protein 90; Provisional; Region: PRK05218 651182014303 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 651182014304 ATP binding site [chemical binding]; other site 651182014305 Mg2+ binding site [ion binding]; other site 651182014306 G-X-G motif; other site 651182014307 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 651182014308 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 651182014309 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 651182014310 FeS/SAM binding site; other site 651182014311 TRAM domain; Region: TRAM; pfam01938 651182014312 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 651182014313 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 651182014314 substrate binding pocket [chemical binding]; other site 651182014315 chain length determination region; other site 651182014316 substrate-Mg2+ binding site; other site 651182014317 catalytic residues [active] 651182014318 aspartate-rich region 1; other site 651182014319 active site lid residues [active] 651182014320 aspartate-rich region 2; other site 651182014321 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 651182014322 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 651182014323 DNA binding residues [nucleotide binding] 651182014324 dimerization interface [polypeptide binding]; other site 651182014325 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 651182014326 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 651182014327 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 651182014328 S-adenosylmethionine binding site [chemical binding]; other site 651182014329 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 651182014330 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 651182014331 Predicted ATPase [General function prediction only]; Region: COG4637 651182014332 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 651182014333 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182014334 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 651182014335 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 651182014336 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 651182014337 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 651182014338 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 651182014339 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 651182014340 SPFH domain / Band 7 family; Region: Band_7; pfam01145 651182014341 AAA ATPase domain; Region: AAA_16; pfam13191 651182014342 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 651182014343 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 651182014344 Walker A motif; other site 651182014345 ATP binding site [chemical binding]; other site 651182014346 Walker B motif; other site 651182014347 arginine finger; other site 651182014348 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 651182014349 hypothetical protein; Provisional; Region: PRK13665 651182014350 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 651182014351 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 651182014352 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 651182014353 dimer interface [polypeptide binding]; other site 651182014354 active site residues [active] 651182014355 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 651182014356 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 651182014357 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 651182014358 active site 651182014359 metal binding site [ion binding]; metal-binding site 651182014360 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 651182014361 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 651182014362 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 651182014363 metal binding triad; other site 651182014364 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 651182014365 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 651182014366 metal binding triad; other site 651182014367 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 651182014368 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 651182014369 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 651182014370 Walker A/P-loop; other site 651182014371 ATP binding site [chemical binding]; other site 651182014372 Q-loop/lid; other site 651182014373 ABC transporter signature motif; other site 651182014374 Walker B; other site 651182014375 D-loop; other site 651182014376 H-loop/switch region; other site 651182014377 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 651182014378 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 651182014379 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 651182014380 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 651182014381 active site 651182014382 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 651182014383 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 651182014384 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 651182014385 ABC-ATPase subunit interface; other site 651182014386 dimer interface [polypeptide binding]; other site 651182014387 putative PBP binding regions; other site 651182014388 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 651182014389 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 651182014390 Walker A/P-loop; other site 651182014391 ATP binding site [chemical binding]; other site 651182014392 Q-loop/lid; other site 651182014393 ABC transporter signature motif; other site 651182014394 Walker B; other site 651182014395 D-loop; other site 651182014396 H-loop/switch region; other site 651182014397 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 651182014398 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 651182014399 intersubunit interface [polypeptide binding]; other site 651182014400 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 651182014401 active site 651182014402 SAM binding site [chemical binding]; other site 651182014403 homodimer interface [polypeptide binding]; other site 651182014404 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 651182014405 Nucleoside recognition; Region: Gate; pfam07670 651182014406 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 651182014407 putative homodimer interface [polypeptide binding]; other site 651182014408 active site 651182014409 SAM binding site [chemical binding]; other site 651182014410 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 651182014411 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 651182014412 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 651182014413 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 651182014414 active site 651182014415 SAM binding site [chemical binding]; other site 651182014416 homodimer interface [polypeptide binding]; other site 651182014417 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 651182014418 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 651182014419 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 651182014420 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 651182014421 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 651182014422 active site 651182014423 SAM binding site [chemical binding]; other site 651182014424 homodimer interface [polypeptide binding]; other site 651182014425 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 651182014426 Walker A motif; other site 651182014427 ATP binding site [chemical binding]; other site 651182014428 Walker B motif; other site 651182014429 cobyric acid synthase; Provisional; Region: PRK00784 651182014430 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 651182014431 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 651182014432 catalytic triad [active] 651182014433 Protein of unknown function (DUF342); Region: DUF342; pfam03961 651182014434 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 651182014435 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 651182014436 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 651182014437 ThiS family; Region: ThiS; pfam02597 651182014438 charged pocket; other site 651182014439 hydrophobic patch; other site 651182014440 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 651182014441 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 651182014442 dimer interface [polypeptide binding]; other site 651182014443 putative functional site; other site 651182014444 putative MPT binding site; other site 651182014445 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 651182014446 catalytic loop [active] 651182014447 iron binding site [ion binding]; other site 651182014448 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182014449 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 651182014450 dimer interface [polypeptide binding]; other site 651182014451 [2Fe-2S] cluster binding site [ion binding]; other site 651182014452 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 651182014453 SLBB domain; Region: SLBB; pfam10531 651182014454 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 651182014455 4Fe-4S binding domain; Region: Fer4; pfam00037 651182014456 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 651182014457 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 651182014458 putative dimer interface [polypeptide binding]; other site 651182014459 [2Fe-2S] cluster binding site [ion binding]; other site 651182014460 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 651182014461 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 651182014462 putative Zn2+ binding site [ion binding]; other site 651182014463 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182014464 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182014465 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 651182014466 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 651182014467 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 651182014468 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 651182014469 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 651182014470 Cysteine-rich domain; Region: CCG; pfam02754 651182014471 Cysteine-rich domain; Region: CCG; pfam02754 651182014472 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 651182014473 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 651182014474 dimer interface [polypeptide binding]; other site 651182014475 putative functional site; other site 651182014476 putative MPT binding site; other site 651182014477 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 651182014478 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 651182014479 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 651182014480 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 651182014481 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 651182014482 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 651182014483 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 651182014484 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 651182014485 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 651182014486 putative MPT binding site; other site 651182014487 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 651182014488 Walker A motif; other site 651182014489 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 651182014490 YcaO-like family; Region: YcaO; pfam02624 651182014491 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 651182014492 TPR motif; other site 651182014493 binding surface 651182014494 TPR repeat; Region: TPR_11; pfam13414 651182014495 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 651182014496 binding surface 651182014497 TPR motif; other site 651182014498 TPR repeat; Region: TPR_11; pfam13414 651182014499 MOSC domain; Region: MOSC; pfam03473 651182014500 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 651182014501 oligomerization interface [polypeptide binding]; other site 651182014502 active site 651182014503 metal binding site [ion binding]; metal-binding site 651182014504 Uncharacterized conserved protein [Function unknown]; Region: COG5495 651182014505 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 651182014506 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 651182014507 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 651182014508 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 651182014509 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 651182014510 Peptidase M16C associated; Region: M16C_assoc; pfam08367 651182014511 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 651182014512 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 651182014513 S-adenosylmethionine binding site [chemical binding]; other site 651182014514 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 651182014515 putative CheA interaction surface; other site 651182014516 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 651182014517 putative active site [active] 651182014518 putative CoA binding site [chemical binding]; other site 651182014519 nudix motif; other site 651182014520 metal binding site [ion binding]; metal-binding site 651182014521 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 651182014522 ATP cone domain; Region: ATP-cone; pfam03477 651182014523 Class III ribonucleotide reductase; Region: RNR_III; cd01675 651182014524 effector binding site; other site 651182014525 active site 651182014526 Zn binding site [ion binding]; other site 651182014527 glycine loop; other site 651182014528 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 651182014529 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 651182014530 FeS/SAM binding site; other site 651182014531 alanine racemase; Reviewed; Region: alr; PRK00053 651182014532 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 651182014533 active site 651182014534 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 651182014535 dimer interface [polypeptide binding]; other site 651182014536 substrate binding site [chemical binding]; other site 651182014537 catalytic residues [active] 651182014538 Helix-turn-helix domain; Region: HTH_17; pfam12728 651182014539 PBP superfamily domain; Region: PBP_like; pfam12727 651182014540 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 651182014541 Walker A motif; other site 651182014542 pantoate--beta-alanine ligase; Region: panC; TIGR00018 651182014543 Pantoate-beta-alanine ligase; Region: PanC; cd00560 651182014544 active site 651182014545 ATP-binding site [chemical binding]; other site 651182014546 pantoate-binding site; other site 651182014547 HXXH motif; other site 651182014548 Putative exonuclease, RdgC; Region: RdgC; cl01122 651182014549 PAS domain S-box; Region: sensory_box; TIGR00229 651182014550 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 651182014551 putative active site [active] 651182014552 heme pocket [chemical binding]; other site 651182014553 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 651182014554 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 651182014555 Walker A motif; other site 651182014556 ATP binding site [chemical binding]; other site 651182014557 Walker B motif; other site 651182014558 arginine finger; other site 651182014559 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 651182014560 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 651182014561 CPxP motif; other site 651182014562 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 651182014563 4Fe-4S binding domain; Region: Fer4; cl02805 651182014564 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 651182014565 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 651182014566 heme-binding residues [chemical binding]; other site 651182014567 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 651182014568 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783