-- dump date 20140619_065012 -- class Genbank::misc_feature -- table misc_feature_note -- id note 589865000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 589865000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 589865000003 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 589865000004 Walker A motif; other site 589865000005 ATP binding site [chemical binding]; other site 589865000006 Walker B motif; other site 589865000007 arginine finger; other site 589865000008 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 589865000009 DnaA box-binding interface [nucleotide binding]; other site 589865000010 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 589865000011 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 589865000012 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 589865000013 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 589865000014 Walker A motif; other site 589865000015 homodimer interface [polypeptide binding]; other site 589865000016 ATP binding site [chemical binding]; other site 589865000017 hydroxycobalamin binding site [chemical binding]; other site 589865000018 Walker B motif; other site 589865000019 Peptidase family M48; Region: Peptidase_M48; cl12018 589865000020 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 589865000021 binding surface 589865000022 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 589865000023 HSP70 interaction site [polypeptide binding]; other site 589865000024 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 589865000025 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 589865000026 active site 589865000027 dimer interface [polypeptide binding]; other site 589865000028 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 589865000029 dimer interface [polypeptide binding]; other site 589865000030 active site 589865000031 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 589865000032 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 589865000033 hinge; other site 589865000034 active site 589865000035 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 589865000036 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 589865000037 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 589865000038 NAD(P) binding site [chemical binding]; other site 589865000039 shikimate binding site; other site 589865000040 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 589865000041 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 589865000042 active site 589865000043 catalytic residue [active] 589865000044 dimer interface [polypeptide binding]; other site 589865000045 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 589865000046 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 589865000047 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 589865000048 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 589865000049 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 589865000050 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 589865000051 substrate binding site; other site 589865000052 dimer interface; other site 589865000053 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 589865000054 homotrimer interaction site [polypeptide binding]; other site 589865000055 zinc binding site [ion binding]; other site 589865000056 CDP-binding sites; other site 589865000057 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 589865000058 Putative zinc ribbon domain; Region: DUF164; pfam02591 589865000059 Uncharacterized conserved protein [Function unknown]; Region: COG0327 589865000060 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 589865000061 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 589865000062 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 589865000063 DNA recombination protein RmuC; Provisional; Region: PRK10361 589865000064 RmuC family; Region: RmuC; pfam02646 589865000065 spermidine synthase; Provisional; Region: PRK00811 589865000066 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 589865000067 S-adenosylmethionine binding site [chemical binding]; other site 589865000068 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 589865000069 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 589865000070 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 589865000071 Predicted transcriptional regulator [Transcription]; Region: COG2378 589865000072 WYL domain; Region: WYL; pfam13280 589865000073 WYL domain; Region: WYL; pfam13280 589865000074 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 589865000075 Part of AAA domain; Region: AAA_19; pfam13245 589865000076 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 589865000077 AAA domain; Region: AAA_12; pfam13087 589865000078 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 589865000079 putative active site [active] 589865000080 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 589865000081 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 589865000082 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 589865000083 active site 589865000084 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 589865000085 Divergent AAA domain; Region: AAA_4; pfam04326 589865000086 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 589865000087 Divergent AAA domain; Region: AAA_4; pfam04326 589865000088 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 589865000089 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 589865000090 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 589865000091 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 589865000092 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 589865000093 Coenzyme A binding pocket [chemical binding]; other site 589865000094 Phosphoglycerate kinase; Region: PGK; pfam00162 589865000095 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 589865000096 substrate binding site [chemical binding]; other site 589865000097 hinge regions; other site 589865000098 ADP binding site [chemical binding]; other site 589865000099 catalytic site [active] 589865000100 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 589865000101 triosephosphate isomerase; Provisional; Region: PRK14567 589865000102 substrate binding site [chemical binding]; other site 589865000103 dimer interface [polypeptide binding]; other site 589865000104 catalytic triad [active] 589865000105 Preprotein translocase SecG subunit; Region: SecG; pfam03840 589865000106 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 589865000107 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 589865000108 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 589865000109 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 589865000110 ApbE family; Region: ApbE; pfam02424 589865000111 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 589865000112 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 589865000113 E3 interaction surface; other site 589865000114 lipoyl attachment site [posttranslational modification]; other site 589865000115 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 589865000116 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 589865000117 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 589865000118 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 589865000119 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 589865000120 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 589865000121 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 589865000122 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 589865000123 catalytic loop [active] 589865000124 iron binding site [ion binding]; other site 589865000125 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 589865000126 FAD binding pocket [chemical binding]; other site 589865000127 FAD binding motif [chemical binding]; other site 589865000128 phosphate binding motif [ion binding]; other site 589865000129 beta-alpha-beta structure motif; other site 589865000130 NAD binding pocket [chemical binding]; other site 589865000131 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 589865000132 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 589865000133 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 589865000134 dimer interface [polypeptide binding]; other site 589865000135 phosphorylation site [posttranslational modification] 589865000136 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865000137 ATP binding site [chemical binding]; other site 589865000138 Mg2+ binding site [ion binding]; other site 589865000139 G-X-G motif; other site 589865000140 Response regulator receiver domain; Region: Response_reg; pfam00072 589865000141 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865000142 active site 589865000143 phosphorylation site [posttranslational modification] 589865000144 intermolecular recognition site; other site 589865000145 dimerization interface [polypeptide binding]; other site 589865000146 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 589865000147 SprA-related family; Region: SprA-related; pfam12118 589865000148 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 589865000149 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 589865000150 EamA-like transporter family; Region: EamA; pfam00892 589865000151 EamA-like transporter family; Region: EamA; pfam00892 589865000152 active site clefts [active] 589865000153 Carbonic anhydrase; Region: Pro_CA; pfam00484 589865000154 zinc binding site [ion binding]; other site 589865000155 dimer interface [polypeptide binding]; other site 589865000156 GrpE; Region: GrpE; pfam01025 589865000157 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 589865000158 dimer interface [polypeptide binding]; other site 589865000159 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 589865000160 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 589865000161 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 589865000162 nucleotide binding site [chemical binding]; other site 589865000163 NEF interaction site [polypeptide binding]; other site 589865000164 SBD interface [polypeptide binding]; other site 589865000165 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 589865000166 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 589865000167 active site 589865000168 HIGH motif; other site 589865000169 dimer interface [polypeptide binding]; other site 589865000170 KMSKS motif; other site 589865000171 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 589865000172 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865000173 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865000174 metal binding site [ion binding]; metal-binding site 589865000175 active site 589865000176 I-site; other site 589865000177 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 589865000178 Clp amino terminal domain; Region: Clp_N; pfam02861 589865000179 Clp amino terminal domain; Region: Clp_N; pfam02861 589865000180 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 589865000181 Walker A motif; other site 589865000182 ATP binding site [chemical binding]; other site 589865000183 Walker B motif; other site 589865000184 arginine finger; other site 589865000185 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 589865000186 Walker A motif; other site 589865000187 ATP binding site [chemical binding]; other site 589865000188 Walker B motif; other site 589865000189 arginine finger; other site 589865000190 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 589865000191 periplasmic folding chaperone; Provisional; Region: PRK10788 589865000192 Cytochrome c552; Region: Cytochrom_C552; pfam02335 589865000193 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 589865000194 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 589865000195 FMN binding site [chemical binding]; other site 589865000196 active site 589865000197 catalytic residues [active] 589865000198 substrate binding site [chemical binding]; other site 589865000199 Cation efflux family; Region: Cation_efflux; cl00316 589865000200 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 589865000201 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 589865000202 Radical SAM superfamily; Region: Radical_SAM; pfam04055 589865000203 FeS/SAM binding site; other site 589865000204 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 589865000205 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 589865000206 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 589865000207 FtsX-like permease family; Region: FtsX; pfam02687 589865000208 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 589865000209 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865000210 Walker A/P-loop; other site 589865000211 ATP binding site [chemical binding]; other site 589865000212 Q-loop/lid; other site 589865000213 ABC transporter signature motif; other site 589865000214 Walker B; other site 589865000215 D-loop; other site 589865000216 H-loop/switch region; other site 589865000217 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 589865000218 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 589865000219 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 589865000220 dimer interface [polypeptide binding]; other site 589865000221 ssDNA binding site [nucleotide binding]; other site 589865000222 tetramer (dimer of dimers) interface [polypeptide binding]; other site 589865000223 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 589865000224 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 589865000225 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 589865000226 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 589865000227 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 589865000228 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 589865000229 oligomer interface [polypeptide binding]; other site 589865000230 metal binding site [ion binding]; metal-binding site 589865000231 metal binding site [ion binding]; metal-binding site 589865000232 Cl binding site [ion binding]; other site 589865000233 aspartate ring; other site 589865000234 basic sphincter; other site 589865000235 putative hydrophobic gate; other site 589865000236 periplasmic entrance; other site 589865000237 Ion transport protein; Region: Ion_trans; pfam00520 589865000238 heat shock protein HtpX; Provisional; Region: PRK05457 589865000239 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 589865000240 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 589865000241 Walker A/P-loop; other site 589865000242 ATP binding site [chemical binding]; other site 589865000243 Q-loop/lid; other site 589865000244 ABC transporter signature motif; other site 589865000245 Walker B; other site 589865000246 D-loop; other site 589865000247 H-loop/switch region; other site 589865000248 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 589865000249 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 589865000250 FtsX-like permease family; Region: FtsX; pfam02687 589865000251 OB-fold nucleic acid binding domain; Region: tRNA_anti; pfam01336 589865000252 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 589865000253 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 589865000254 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 589865000255 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 589865000256 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 589865000257 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 589865000258 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 589865000259 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 589865000260 motif II; other site 589865000261 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 589865000262 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 589865000263 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 589865000264 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 589865000265 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 589865000266 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 589865000267 Soluble P-type ATPase [General function prediction only]; Region: COG4087 589865000268 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 589865000269 Smr domain; Region: Smr; pfam01713 589865000270 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 589865000271 Peptidase family M23; Region: Peptidase_M23; pfam01551 589865000272 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 589865000273 DEAD-like helicases superfamily; Region: DEXDc; smart00487 589865000274 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 589865000275 ATP binding site [chemical binding]; other site 589865000276 putative Mg++ binding site [ion binding]; other site 589865000277 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 589865000278 nucleotide binding region [chemical binding]; other site 589865000279 ATP-binding site [chemical binding]; other site 589865000280 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 589865000281 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 589865000282 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 589865000283 ABC transporter; Region: ABC_tran_2; pfam12848 589865000284 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 589865000285 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 589865000286 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865000287 putative active site [active] 589865000288 heme pocket [chemical binding]; other site 589865000289 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 589865000290 dimer interface [polypeptide binding]; other site 589865000291 phosphorylation site [posttranslational modification] 589865000292 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865000293 ATP binding site [chemical binding]; other site 589865000294 Mg2+ binding site [ion binding]; other site 589865000295 G-X-G motif; other site 589865000296 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865000297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865000298 active site 589865000299 phosphorylation site [posttranslational modification] 589865000300 intermolecular recognition site; other site 589865000301 dimerization interface [polypeptide binding]; other site 589865000302 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 589865000303 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865000304 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865000305 active site 589865000306 phosphorylation site [posttranslational modification] 589865000307 intermolecular recognition site; other site 589865000308 dimerization interface [polypeptide binding]; other site 589865000309 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865000310 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865000311 metal binding site [ion binding]; metal-binding site 589865000312 active site 589865000313 I-site; other site 589865000314 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 589865000315 active site 589865000316 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 589865000317 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 589865000318 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 589865000319 Major Facilitator Superfamily; Region: MFS_1; pfam07690 589865000320 putative substrate translocation pore; other site 589865000321 aspartate aminotransferase; Provisional; Region: PRK06836 589865000322 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 589865000323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865000324 homodimer interface [polypeptide binding]; other site 589865000325 catalytic residue [active] 589865000326 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 589865000327 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 589865000328 acyl-activating enzyme (AAE) consensus motif; other site 589865000329 AMP binding site [chemical binding]; other site 589865000330 active site 589865000331 CoA binding site [chemical binding]; other site 589865000332 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 589865000333 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 589865000334 Walker A/P-loop; other site 589865000335 ATP binding site [chemical binding]; other site 589865000336 Q-loop/lid; other site 589865000337 ABC transporter signature motif; other site 589865000338 Walker B; other site 589865000339 D-loop; other site 589865000340 H-loop/switch region; other site 589865000341 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 589865000342 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 589865000343 Walker A/P-loop; other site 589865000344 ATP binding site [chemical binding]; other site 589865000345 Q-loop/lid; other site 589865000346 ABC transporter signature motif; other site 589865000347 Walker B; other site 589865000348 D-loop; other site 589865000349 H-loop/switch region; other site 589865000350 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 589865000351 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 589865000352 TM-ABC transporter signature motif; other site 589865000353 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 589865000354 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 589865000355 TM-ABC transporter signature motif; other site 589865000356 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 589865000357 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 589865000358 putative ligand binding site [chemical binding]; other site 589865000359 ACT domain-containing protein [General function prediction only]; Region: COG4747 589865000360 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 589865000361 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 589865000362 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 589865000363 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 589865000364 acyl-activating enzyme (AAE) consensus motif; other site 589865000365 AMP binding site [chemical binding]; other site 589865000366 active site 589865000367 CoA binding site [chemical binding]; other site 589865000368 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 589865000369 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 589865000370 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 589865000371 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 589865000372 dimer interface [polypeptide binding]; other site 589865000373 PYR/PP interface [polypeptide binding]; other site 589865000374 TPP binding site [chemical binding]; other site 589865000375 substrate binding site [chemical binding]; other site 589865000376 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 589865000377 TPP-binding site; other site 589865000378 4Fe-4S binding domain; Region: Fer4; pfam00037 589865000379 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 589865000380 NAD-dependent deacetylase; Provisional; Region: PRK00481 589865000381 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 589865000382 NAD+ binding site [chemical binding]; other site 589865000383 substrate binding site [chemical binding]; other site 589865000384 Zn binding site [ion binding]; other site 589865000385 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 589865000386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 589865000387 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 589865000388 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 589865000389 dimer interface [polypeptide binding]; other site 589865000390 active site 589865000391 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 589865000392 catalytic residues [active] 589865000393 substrate binding site [chemical binding]; other site 589865000394 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 589865000395 Zn binding site [ion binding]; other site 589865000396 Protein of unknown function, DUF399; Region: DUF399; pfam04187 589865000397 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 589865000398 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 589865000399 methionine sulfoxide reductase A; Provisional; Region: PRK14054 589865000400 methionine sulfoxide reductase B; Provisional; Region: PRK00222 589865000401 SelR domain; Region: SelR; pfam01641 589865000402 DsrE/DsrF-like family; Region: DrsE; pfam02635 589865000403 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 589865000404 domain_subunit interface; other site 589865000405 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 589865000406 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 589865000407 4Fe-4S binding domain; Region: Fer4; pfam00037 589865000408 4Fe-4S binding domain; Region: Fer4_6; pfam12837 589865000409 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 589865000410 4Fe-4S binding domain; Region: Fer4; pfam00037 589865000411 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 589865000412 phosphate binding site [ion binding]; other site 589865000413 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 589865000414 active site 589865000415 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 589865000416 glutamate dehydrogenase; Provisional; Region: PRK09414 589865000417 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 589865000418 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 589865000419 NAD(P) binding site [chemical binding]; other site 589865000420 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 589865000421 Nitrogen regulatory protein P-II; Region: P-II; smart00938 589865000422 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 589865000423 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 589865000424 tyrosine decarboxylase; Region: PLN02880 589865000425 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 589865000426 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 589865000427 catalytic residue [active] 589865000428 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; cl00163 589865000429 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 589865000430 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 589865000431 catalytic triad [active] 589865000432 putative active site [active] 589865000433 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 589865000434 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 589865000435 CPxP motif; other site 589865000436 DsrE/DsrF-like family; Region: DrsE; pfam02635 589865000437 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 589865000438 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 589865000439 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 589865000440 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 589865000441 active site 589865000442 dimerization interface [polypeptide binding]; other site 589865000443 Dodecin; Region: Dodecin; pfam07311 589865000444 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 589865000445 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 589865000446 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 589865000447 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 589865000448 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 589865000449 motif II; other site 589865000450 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 589865000451 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 589865000452 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 589865000453 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 589865000454 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 589865000455 active site 589865000456 catalytic site [active] 589865000457 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 589865000458 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 589865000459 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 589865000460 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 589865000461 active site residue [active] 589865000462 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 589865000463 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 589865000464 ABC1 family; Region: ABC1; cl17513 589865000465 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 589865000466 Uncharacterized conserved protein [Function unknown]; Region: COG3937 589865000467 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 589865000468 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 589865000469 RNA binding surface [nucleotide binding]; other site 589865000470 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 589865000471 active site 589865000472 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 589865000473 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 589865000474 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 589865000475 DNA binding residues [nucleotide binding] 589865000476 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 589865000477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 589865000478 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 589865000479 putative dimerization interface [polypeptide binding]; other site 589865000480 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 589865000481 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 589865000482 active site 589865000483 DNA binding site [nucleotide binding] 589865000484 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 589865000485 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 589865000486 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 589865000487 Catalytic site [active] 589865000488 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 589865000489 substrate binding site [chemical binding]; other site 589865000490 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 589865000491 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 589865000492 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 589865000493 FtsX-like permease family; Region: FtsX; pfam02687 589865000494 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 589865000495 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 589865000496 Walker A/P-loop; other site 589865000497 ATP binding site [chemical binding]; other site 589865000498 Q-loop/lid; other site 589865000499 ABC transporter signature motif; other site 589865000500 Walker B; other site 589865000501 D-loop; other site 589865000502 H-loop/switch region; other site 589865000503 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 589865000504 Uncharacterized conserved protein [Function unknown]; Region: COG1656 589865000505 Protein of unknown function DUF82; Region: DUF82; pfam01927 589865000506 hypothetical protein; Validated; Region: PRK00029 589865000507 Uncharacterized conserved protein [Function unknown]; Region: COG0397 589865000508 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 589865000509 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 589865000510 binding surface 589865000511 Tetratricopeptide repeat; Region: TPR_16; pfam13432 589865000512 TPR motif; other site 589865000513 Uncharacterized conserved protein [Function unknown]; Region: COG1262 589865000514 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 589865000515 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 589865000516 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 589865000517 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 589865000518 Rrf2 family protein; Region: rrf2_super; TIGR00738 589865000519 Transcriptional regulator; Region: Rrf2; pfam02082 589865000520 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 589865000521 Low-spin heme binding site [chemical binding]; other site 589865000522 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 589865000523 D-pathway; other site 589865000524 Putative water exit pathway; other site 589865000525 Binuclear center (active site) [active] 589865000526 K-pathway; other site 589865000527 Putative proton exit pathway; other site 589865000528 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional; Region: PRK14486 589865000529 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 589865000530 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 589865000531 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 589865000532 4Fe-4S binding domain; Region: Fer4_5; pfam12801 589865000533 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 589865000534 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 589865000535 FixH; Region: FixH; pfam05751 589865000536 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 589865000537 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 589865000538 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 589865000539 metal-binding site [ion binding] 589865000540 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 589865000541 Soluble P-type ATPase [General function prediction only]; Region: COG4087 589865000542 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 589865000543 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 589865000544 Family description; Region: DsbD_2; pfam13386 589865000545 HDOD domain; Region: HDOD; pfam08668 589865000546 GAF domain; Region: GAF; cl17456 589865000547 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 589865000548 Protein of unknown function (DUF2452); Region: DUF2452; pfam10504 589865000549 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 589865000550 putative active site [active] 589865000551 asparagine synthetase B; Provisional; Region: asnB; PRK09431 589865000552 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 589865000553 active site 589865000554 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 589865000555 Ligand Binding Site [chemical binding]; other site 589865000556 Molecular Tunnel; other site 589865000557 Protein of unknown function (DUF342); Region: DUF342; pfam03961 589865000558 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 589865000559 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 589865000560 active site residue [active] 589865000561 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 589865000562 Protein of unknown function (DUF502); Region: DUF502; pfam04367 589865000563 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 589865000564 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 589865000565 Ligand binding site [chemical binding]; other site 589865000566 Electron transfer flavoprotein domain; Region: ETF; pfam01012 589865000567 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 589865000568 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 589865000569 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 589865000570 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 589865000571 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 589865000572 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 589865000573 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 589865000574 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 589865000575 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 589865000576 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 589865000577 DsrC like protein; Region: DsrC; cl01101 589865000578 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11869 589865000579 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 589865000580 TPP-binding site [chemical binding]; other site 589865000581 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 589865000582 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 589865000583 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 589865000584 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 589865000585 dimer interface [polypeptide binding]; other site 589865000586 PYR/PP interface [polypeptide binding]; other site 589865000587 TPP binding site [chemical binding]; other site 589865000588 substrate binding site [chemical binding]; other site 589865000589 Predicted membrane protein [Function unknown]; Region: COG3671 589865000590 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 589865000591 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 589865000592 active site residue [active] 589865000593 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 589865000594 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 589865000595 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 589865000596 metal binding site [ion binding]; metal-binding site 589865000597 dimer interface [polypeptide binding]; other site 589865000598 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 589865000599 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 589865000600 Coenzyme A binding pocket [chemical binding]; other site 589865000601 Protein of unknown function (DUF342); Region: DUF342; pfam03961 589865000602 Protein of unknown function (DUF342); Region: DUF342; pfam03961 589865000603 Protein of unknown function (DUF342); Region: DUF342; pfam03961 589865000604 FOG: CBS domain [General function prediction only]; Region: COG0517 589865000605 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 589865000606 selenocysteine synthase; Provisional; Region: PRK04311 589865000607 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 589865000608 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 589865000609 catalytic residue [active] 589865000610 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865000611 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 589865000612 TPR motif; other site 589865000613 TPR repeat; Region: TPR_11; pfam13414 589865000614 binding surface 589865000615 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 589865000616 binding surface 589865000617 TPR motif; other site 589865000618 TPR repeat; Region: TPR_11; pfam13414 589865000619 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 589865000620 TPR motif; other site 589865000621 TPR repeat; Region: TPR_11; pfam13414 589865000622 binding surface 589865000623 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 589865000624 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 589865000625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 589865000626 Phosphotransferase enzyme family; Region: APH; pfam01636 589865000627 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865000628 PAS domain; Region: PAS_9; pfam13426 589865000629 putative active site [active] 589865000630 heme pocket [chemical binding]; other site 589865000631 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 589865000632 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 589865000633 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 589865000634 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 589865000635 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865000636 metal binding site [ion binding]; metal-binding site 589865000637 active site 589865000638 I-site; other site 589865000639 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 589865000640 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 589865000641 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 589865000642 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 589865000643 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 589865000644 G1 box; other site 589865000645 GTP/Mg2+ binding site [chemical binding]; other site 589865000646 G2 box; other site 589865000647 Switch I region; other site 589865000648 G3 box; other site 589865000649 Switch II region; other site 589865000650 G4 box; other site 589865000651 G5 box; other site 589865000652 Acylphosphatase; Region: Acylphosphatase; pfam00708 589865000653 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 589865000654 HypF finger; Region: zf-HYPF; pfam07503 589865000655 HypF finger; Region: zf-HYPF; pfam07503 589865000656 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 589865000657 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 589865000658 HupF/HypC family; Region: HupF_HypC; pfam01455 589865000659 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 589865000660 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 589865000661 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 589865000662 dimerization interface [polypeptide binding]; other site 589865000663 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 589865000664 ATP binding site [chemical binding]; other site 589865000665 Nitrate and nitrite sensing; Region: NIT; pfam08376 589865000666 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865000667 metal binding site [ion binding]; metal-binding site 589865000668 active site 589865000669 I-site; other site 589865000670 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 589865000671 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865000672 putative active site [active] 589865000673 heme pocket [chemical binding]; other site 589865000674 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 589865000675 dimer interface [polypeptide binding]; other site 589865000676 phosphorylation site [posttranslational modification] 589865000677 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865000678 ATP binding site [chemical binding]; other site 589865000679 Mg2+ binding site [ion binding]; other site 589865000680 G-X-G motif; other site 589865000681 Response regulator receiver domain; Region: Response_reg; pfam00072 589865000682 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865000683 active site 589865000684 phosphorylation site [posttranslational modification] 589865000685 intermolecular recognition site; other site 589865000686 dimerization interface [polypeptide binding]; other site 589865000687 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 589865000688 putative active site [active] 589865000689 putative catalytic site [active] 589865000690 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 589865000691 PLD-like domain; Region: PLDc_2; pfam13091 589865000692 putative active site [active] 589865000693 putative catalytic site [active] 589865000694 PAS domain S-box; Region: sensory_box; TIGR00229 589865000695 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 589865000696 putative active site [active] 589865000697 heme pocket [chemical binding]; other site 589865000698 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 589865000699 dimer interface [polypeptide binding]; other site 589865000700 phosphorylation site [posttranslational modification] 589865000701 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865000702 ATP binding site [chemical binding]; other site 589865000703 Mg2+ binding site [ion binding]; other site 589865000704 G-X-G motif; other site 589865000705 Response regulator receiver domain; Region: Response_reg; pfam00072 589865000706 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865000707 active site 589865000708 phosphorylation site [posttranslational modification] 589865000709 intermolecular recognition site; other site 589865000710 dimerization interface [polypeptide binding]; other site 589865000711 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 589865000712 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 589865000713 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 589865000714 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 589865000715 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865000716 dimer interface [polypeptide binding]; other site 589865000717 putative CheW interface [polypeptide binding]; other site 589865000718 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 589865000719 anti sigma factor interaction site; other site 589865000720 regulatory phosphorylation site [posttranslational modification]; other site 589865000721 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 589865000722 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 589865000723 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 589865000724 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 589865000725 Walker A motif; other site 589865000726 ATP binding site [chemical binding]; other site 589865000727 Walker B motif; other site 589865000728 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 589865000729 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 589865000730 Uncharacterized conserved protein [Function unknown]; Region: COG0062 589865000731 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 589865000732 putative substrate binding site [chemical binding]; other site 589865000733 putative ATP binding site [chemical binding]; other site 589865000734 FOG: CBS domain [General function prediction only]; Region: COG0517 589865000735 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 589865000736 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 589865000737 aminodeoxychorismate synthase; Provisional; Region: PRK07508 589865000738 chorismate binding enzyme; Region: Chorismate_bind; cl10555 589865000739 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; cl00224 589865000740 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 589865000741 homodimer interface [polypeptide binding]; other site 589865000742 substrate-cofactor binding pocket; other site 589865000743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865000744 catalytic residue [active] 589865000745 FOG: CBS domain [General function prediction only]; Region: COG0517 589865000746 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 589865000747 C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria; Region: ACT_CBS; cd04884 589865000748 Transglycosylase; Region: Transgly; pfam00912 589865000749 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 589865000750 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 589865000751 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 589865000752 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 589865000753 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 589865000754 ResB-like family; Region: ResB; pfam05140 589865000755 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 589865000756 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 589865000757 HD domain; Region: HD_4; pfam13328 589865000758 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 589865000759 synthetase active site [active] 589865000760 NTP binding site [chemical binding]; other site 589865000761 metal binding site [ion binding]; metal-binding site 589865000762 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 589865000763 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 589865000764 prolyl-tRNA synthetase; Provisional; Region: PRK09194 589865000765 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 589865000766 dimer interface [polypeptide binding]; other site 589865000767 motif 1; other site 589865000768 active site 589865000769 motif 2; other site 589865000770 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 589865000771 putative deacylase active site [active] 589865000772 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 589865000773 active site 589865000774 motif 3; other site 589865000775 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 589865000776 anticodon binding site; other site 589865000777 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 589865000778 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 589865000779 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 589865000780 Phospholipid methyltransferase; Region: PEMT; cl17370 589865000781 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 589865000782 Ferritin-like domain; Region: Ferritin; pfam00210 589865000783 ferroxidase diiron center [ion binding]; other site 589865000784 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865000785 dimer interface [polypeptide binding]; other site 589865000786 putative CheW interface [polypeptide binding]; other site 589865000787 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 589865000788 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 589865000789 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 589865000790 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 589865000791 HDOD domain; Region: HDOD; pfam08668 589865000792 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865000793 Zn2+ binding site [ion binding]; other site 589865000794 Mg2+ binding site [ion binding]; other site 589865000795 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865000796 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865000797 metal binding site [ion binding]; metal-binding site 589865000798 active site 589865000799 I-site; other site 589865000800 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 589865000801 N-acetyl-D-glucosamine binding site [chemical binding]; other site 589865000802 catalytic residue [active] 589865000803 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 589865000804 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 589865000805 aminopeptidase N; Provisional; Region: pepN; PRK14015 589865000806 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 589865000807 Zn binding site [ion binding]; other site 589865000808 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 589865000809 elongation factor P; Validated; Region: PRK00529 589865000810 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 589865000811 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 589865000812 RNA binding site [nucleotide binding]; other site 589865000813 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 589865000814 RNA binding site [nucleotide binding]; other site 589865000815 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 589865000816 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 589865000817 motif 1; other site 589865000818 dimer interface [polypeptide binding]; other site 589865000819 active site 589865000820 motif 2; other site 589865000821 motif 3; other site 589865000822 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 589865000823 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 589865000824 Ligand Binding Site [chemical binding]; other site 589865000825 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 589865000826 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 589865000827 dimer interface [polypeptide binding]; other site 589865000828 phosphorylation site [posttranslational modification] 589865000829 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865000830 ATP binding site [chemical binding]; other site 589865000831 Mg2+ binding site [ion binding]; other site 589865000832 G-X-G motif; other site 589865000833 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865000834 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865000835 active site 589865000836 phosphorylation site [posttranslational modification] 589865000837 intermolecular recognition site; other site 589865000838 dimerization interface [polypeptide binding]; other site 589865000839 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 589865000840 Walker A motif; other site 589865000841 ATP binding site [chemical binding]; other site 589865000842 Walker B motif; other site 589865000843 arginine finger; other site 589865000844 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 589865000845 Fe-S cluster binding site [ion binding]; other site 589865000846 active site 589865000847 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 589865000848 dimer interface [polypeptide binding]; other site 589865000849 FMN binding site [chemical binding]; other site 589865000850 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 589865000851 glutamate racemase; Provisional; Region: PRK00865 589865000852 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 589865000853 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 589865000854 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 589865000855 active site 589865000856 metal binding site [ion binding]; metal-binding site 589865000857 homotetramer interface [polypeptide binding]; other site 589865000858 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 589865000859 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 589865000860 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 589865000861 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 589865000862 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 589865000863 catalytic site [active] 589865000864 G-X2-G-X-G-K; other site 589865000865 hypothetical protein; Provisional; Region: PRK04323 589865000866 hypothetical protein; Provisional; Region: PRK11820 589865000867 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 589865000868 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 589865000869 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 589865000870 dimer interface [polypeptide binding]; other site 589865000871 phosphorylation site [posttranslational modification] 589865000872 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865000873 ATP binding site [chemical binding]; other site 589865000874 G-X-G motif; other site 589865000875 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865000876 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865000877 active site 589865000878 phosphorylation site [posttranslational modification] 589865000879 intermolecular recognition site; other site 589865000880 dimerization interface [polypeptide binding]; other site 589865000881 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 589865000882 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865000883 active site 589865000884 phosphorylation site [posttranslational modification] 589865000885 intermolecular recognition site; other site 589865000886 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865000887 PAS domain; Region: PAS_9; pfam13426 589865000888 putative active site [active] 589865000889 heme pocket [chemical binding]; other site 589865000890 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865000891 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865000892 metal binding site [ion binding]; metal-binding site 589865000893 active site 589865000894 I-site; other site 589865000895 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 589865000896 Response regulator receiver domain; Region: Response_reg; pfam00072 589865000897 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865000898 active site 589865000899 phosphorylation site [posttranslational modification] 589865000900 intermolecular recognition site; other site 589865000901 dimerization interface [polypeptide binding]; other site 589865000902 PAS domain; Region: PAS_9; pfam13426 589865000903 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865000904 ATP binding site [chemical binding]; other site 589865000905 Mg2+ binding site [ion binding]; other site 589865000906 G-X-G motif; other site 589865000907 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 589865000908 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865000909 active site 589865000910 phosphorylation site [posttranslational modification] 589865000911 intermolecular recognition site; other site 589865000912 dimerization interface [polypeptide binding]; other site 589865000913 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865000914 Zn2+ binding site [ion binding]; other site 589865000915 Mg2+ binding site [ion binding]; other site 589865000916 Flagellin N-methylase; Region: FliB; pfam03692 589865000917 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 589865000918 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 589865000919 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 589865000920 Flagellar protein FliS; Region: FliS; cl00654 589865000921 FlaG protein; Region: FlaG; pfam03646 589865000922 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 589865000923 ATP-sulfurylase; Region: ATPS; cd00517 589865000924 active site 589865000925 HXXH motif; other site 589865000926 flexible loop; other site 589865000927 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 589865000928 active site 589865000929 dimer interface [polypeptide binding]; other site 589865000930 metal binding site [ion binding]; metal-binding site 589865000931 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 589865000932 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 589865000933 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 589865000934 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 589865000935 active site residue [active] 589865000936 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 589865000937 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 589865000938 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 589865000939 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 589865000940 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 589865000941 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 589865000942 G1 box; other site 589865000943 putative GEF interaction site [polypeptide binding]; other site 589865000944 GTP/Mg2+ binding site [chemical binding]; other site 589865000945 Switch I region; other site 589865000946 G2 box; other site 589865000947 G3 box; other site 589865000948 Switch II region; other site 589865000949 G4 box; other site 589865000950 G5 box; other site 589865000951 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 589865000952 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 589865000953 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 589865000954 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 589865000955 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 589865000956 putative acyl-acceptor binding pocket; other site 589865000957 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 589865000958 dimer interface [polypeptide binding]; other site 589865000959 catalytic triad [active] 589865000960 pantothenate kinase; Reviewed; Region: PRK13318 589865000961 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 589865000962 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 589865000963 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 589865000964 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 589865000965 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 589865000966 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 589865000967 nucleoside/Zn binding site; other site 589865000968 dimer interface [polypeptide binding]; other site 589865000969 catalytic motif [active] 589865000970 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 589865000971 putative active site [active] 589865000972 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 589865000973 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 589865000974 ATP-grasp domain; Region: ATP-grasp_4; cl17255 589865000975 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 589865000976 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 589865000977 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 589865000978 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865000979 Zn2+ binding site [ion binding]; other site 589865000980 Mg2+ binding site [ion binding]; other site 589865000981 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 589865000982 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 589865000983 catalytic triad [active] 589865000984 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 589865000985 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 589865000986 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 589865000987 active site 589865000988 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 589865000989 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 589865000990 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 589865000991 active site 589865000992 dimer interface [polypeptide binding]; other site 589865000993 effector binding site; other site 589865000994 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 589865000995 TSCPD domain; Region: TSCPD; pfam12637 589865000996 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 589865000997 putative active site pocket [active] 589865000998 dimerization interface [polypeptide binding]; other site 589865000999 putative catalytic residue [active] 589865001000 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 589865001001 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 589865001002 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 589865001003 Walker A motif; other site 589865001004 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 589865001005 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 589865001006 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 589865001007 G1 box; other site 589865001008 putative GEF interaction site [polypeptide binding]; other site 589865001009 GTP/Mg2+ binding site [chemical binding]; other site 589865001010 Switch I region; other site 589865001011 G2 box; other site 589865001012 G3 box; other site 589865001013 Switch II region; other site 589865001014 G4 box; other site 589865001015 G5 box; other site 589865001016 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 589865001017 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 589865001018 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 589865001019 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 589865001020 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 589865001021 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 589865001022 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 589865001023 Uncharacterized conserved protein [Function unknown]; Region: COG3391 589865001024 NHL repeat; Region: NHL; pfam01436 589865001025 NHL repeat; Region: NHL; pfam01436 589865001026 NHL repeat; Region: NHL; pfam01436 589865001027 NHL repeat; Region: NHL; pfam01436 589865001028 NHL repeat; Region: NHL; pfam01436 589865001029 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 589865001030 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 589865001031 RHS Repeat; Region: RHS_repeat; pfam05593 589865001032 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 589865001033 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 589865001034 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 589865001035 Walker A motif; other site 589865001036 ATP binding site [chemical binding]; other site 589865001037 Walker B motif; other site 589865001038 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 589865001039 Integrase core domain; Region: rve; pfam00665 589865001040 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 589865001041 ACS interaction site; other site 589865001042 CODH interaction site; other site 589865001043 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 589865001044 cubane metal cluster (B-cluster) [ion binding]; other site 589865001045 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 589865001046 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 589865001047 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 589865001048 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 589865001049 HflX GTPase family; Region: HflX; cd01878 589865001050 G1 box; other site 589865001051 GTP/Mg2+ binding site [chemical binding]; other site 589865001052 Switch I region; other site 589865001053 G2 box; other site 589865001054 G3 box; other site 589865001055 Switch II region; other site 589865001056 G4 box; other site 589865001057 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 589865001058 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 589865001059 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 589865001060 dimerization interface [polypeptide binding]; other site 589865001061 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865001062 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 589865001063 putative active site [active] 589865001064 heme pocket [chemical binding]; other site 589865001065 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 589865001066 dimer interface [polypeptide binding]; other site 589865001067 phosphorylation site [posttranslational modification] 589865001068 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865001069 ATP binding site [chemical binding]; other site 589865001070 Mg2+ binding site [ion binding]; other site 589865001071 G-X-G motif; other site 589865001072 Response regulator receiver domain; Region: Response_reg; pfam00072 589865001073 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865001074 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865001075 metal binding site [ion binding]; metal-binding site 589865001076 active site 589865001077 I-site; other site 589865001078 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 589865001079 HDOD domain; Region: HDOD; pfam08668 589865001080 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865001081 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865001082 active site 589865001083 phosphorylation site [posttranslational modification] 589865001084 intermolecular recognition site; other site 589865001085 dimerization interface [polypeptide binding]; other site 589865001086 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 589865001087 Walker A motif; other site 589865001088 ATP binding site [chemical binding]; other site 589865001089 Walker B motif; other site 589865001090 arginine finger; other site 589865001091 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 589865001092 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 589865001093 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 589865001094 Walker A motif; other site 589865001095 ATP binding site [chemical binding]; other site 589865001096 Walker B motif; other site 589865001097 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 589865001098 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 589865001099 dimer interface [polypeptide binding]; other site 589865001100 active site 589865001101 Schiff base residues; other site 589865001102 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 589865001103 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 589865001104 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 589865001105 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 589865001106 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 589865001107 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 589865001108 Ligand Binding Site [chemical binding]; other site 589865001109 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 589865001110 putative active site pocket [active] 589865001111 4-fold oligomerization interface [polypeptide binding]; other site 589865001112 metal binding residues [ion binding]; metal-binding site 589865001113 3-fold/trimer interface [polypeptide binding]; other site 589865001114 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 589865001115 23S rRNA interface [nucleotide binding]; other site 589865001116 L3 interface [polypeptide binding]; other site 589865001117 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 589865001118 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 589865001119 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 589865001120 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 589865001121 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 589865001122 dimerization interface 3.5A [polypeptide binding]; other site 589865001123 active site 589865001124 aspartate aminotransferase; Provisional; Region: PRK05764 589865001125 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 589865001126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865001127 homodimer interface [polypeptide binding]; other site 589865001128 catalytic residue [active] 589865001129 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 589865001130 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 589865001131 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 589865001132 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 589865001133 Walker A motif; other site 589865001134 ATP binding site [chemical binding]; other site 589865001135 Walker B motif; other site 589865001136 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 589865001137 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 589865001138 NADP binding site [chemical binding]; other site 589865001139 active site 589865001140 putative substrate binding site [chemical binding]; other site 589865001141 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 589865001142 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 589865001143 NADP-binding site; other site 589865001144 homotetramer interface [polypeptide binding]; other site 589865001145 substrate binding site [chemical binding]; other site 589865001146 homodimer interface [polypeptide binding]; other site 589865001147 active site 589865001148 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 589865001149 tetramer interfaces [polypeptide binding]; other site 589865001150 binuclear metal-binding site [ion binding]; other site 589865001151 hypothetical protein; Provisional; Region: PRK04194 589865001152 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 589865001153 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 589865001154 putative active site [active] 589865001155 substrate binding site [chemical binding]; other site 589865001156 putative cosubstrate binding site; other site 589865001157 catalytic site [active] 589865001158 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 589865001159 substrate binding site [chemical binding]; other site 589865001160 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 589865001161 active site 589865001162 catalytic residues [active] 589865001163 metal binding site [ion binding]; metal-binding site 589865001164 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 589865001165 primosomal protein N' Region: priA; TIGR00595 589865001166 ATP binding site [chemical binding]; other site 589865001167 putative Mg++ binding site [ion binding]; other site 589865001168 helicase superfamily c-terminal domain; Region: HELICc; smart00490 589865001169 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 589865001170 active site 589865001171 tetramer interface; other site 589865001172 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 589865001173 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 589865001174 Ligand Binding Site [chemical binding]; other site 589865001175 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 589865001176 Ligand binding site; other site 589865001177 Putative Catalytic site; other site 589865001178 DXD motif; other site 589865001179 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 589865001180 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 589865001181 metal-binding site 589865001182 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 589865001183 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 589865001184 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 589865001185 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 589865001186 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 589865001187 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 589865001188 Methyltransferase domain; Region: Methyltransf_23; pfam13489 589865001189 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 589865001190 S-adenosylmethionine binding site [chemical binding]; other site 589865001191 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 589865001192 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 589865001193 inhibitor-cofactor binding pocket; inhibition site 589865001194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865001195 catalytic residue [active] 589865001196 Cupin domain; Region: Cupin_2; cl17218 589865001197 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 589865001198 Methyltransferase domain; Region: Methyltransf_23; pfam13489 589865001199 Methyltransferase domain; Region: Methyltransf_12; pfam08242 589865001200 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 589865001201 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 589865001202 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 589865001203 AAA domain; Region: AAA_14; pfam13173 589865001204 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 589865001205 Transposase, Mutator family; Region: Transposase_mut; pfam00872 589865001206 MULE transposase domain; Region: MULE; pfam10551 589865001207 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 589865001208 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 589865001209 Ligand binding site; other site 589865001210 Putative Catalytic site; other site 589865001211 DXD motif; other site 589865001212 Predicted membrane protein [Function unknown]; Region: COG2246 589865001213 GtrA-like protein; Region: GtrA; pfam04138 589865001214 Oligosaccharyl transferase STT3 subunit; Region: STT3; pfam02516 589865001215 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 589865001216 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 589865001217 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 589865001218 HAMP domain; Region: HAMP; pfam00672 589865001219 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 589865001220 Interdomain contacts; other site 589865001221 Cytokine receptor motif; other site 589865001222 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001223 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 589865001224 NHL repeat; Region: NHL; pfam01436 589865001225 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 589865001226 heme-binding residues [chemical binding]; other site 589865001227 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001228 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001229 Uncharacterized conserved protein [Function unknown]; Region: COG3391 589865001230 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 589865001231 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 589865001232 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001233 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 589865001234 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001235 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001236 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001237 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001238 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001239 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001240 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 589865001241 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001242 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001243 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 589865001244 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001245 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001246 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001247 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001248 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001249 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865001250 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 589865001251 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 589865001252 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 589865001253 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 589865001254 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 589865001255 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 589865001256 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 589865001257 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 589865001258 membrane-bound complex binding site; other site 589865001259 hinge residues; other site 589865001260 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 589865001261 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 589865001262 dimerization interface [polypeptide binding]; other site 589865001263 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 589865001264 dimer interface [polypeptide binding]; other site 589865001265 phosphorylation site [posttranslational modification] 589865001266 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865001267 ATP binding site [chemical binding]; other site 589865001268 Mg2+ binding site [ion binding]; other site 589865001269 G-X-G motif; other site 589865001270 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865001271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865001272 active site 589865001273 phosphorylation site [posttranslational modification] 589865001274 intermolecular recognition site; other site 589865001275 dimerization interface [polypeptide binding]; other site 589865001276 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 589865001277 Walker A motif; other site 589865001278 ATP binding site [chemical binding]; other site 589865001279 Walker B motif; other site 589865001280 arginine finger; other site 589865001281 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865001282 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865001283 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865001284 active site 589865001285 phosphorylation site [posttranslational modification] 589865001286 intermolecular recognition site; other site 589865001287 dimerization interface [polypeptide binding]; other site 589865001288 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 589865001289 ResB-like family; Region: ResB; pfam05140 589865001290 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 589865001291 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 589865001292 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865001293 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865001294 metal binding site [ion binding]; metal-binding site 589865001295 active site 589865001296 I-site; other site 589865001297 PilZ domain; Region: PilZ; pfam07238 589865001298 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 589865001299 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 589865001300 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865001301 putative active site [active] 589865001302 heme pocket [chemical binding]; other site 589865001303 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 589865001304 dimer interface [polypeptide binding]; other site 589865001305 phosphorylation site [posttranslational modification] 589865001306 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865001307 ATP binding site [chemical binding]; other site 589865001308 G-X-G motif; other site 589865001309 Response regulator receiver domain; Region: Response_reg; pfam00072 589865001310 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865001311 active site 589865001312 phosphorylation site [posttranslational modification] 589865001313 intermolecular recognition site; other site 589865001314 dimerization interface [polypeptide binding]; other site 589865001315 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 589865001316 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 589865001317 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 589865001318 c(7)-type cytochrome triheme domain; Region: nanowire_3heme; TIGR04257 589865001319 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 589865001320 active site residue [active] 589865001321 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 589865001322 active site residue [active] 589865001323 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 589865001324 active site residue [active] 589865001325 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 589865001326 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 589865001327 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 589865001328 thiosulfate reductase PhsA; Provisional; Region: PRK15488 589865001329 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 589865001330 putative [Fe4-S4] binding site [ion binding]; other site 589865001331 putative molybdopterin cofactor binding site [chemical binding]; other site 589865001332 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 589865001333 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 589865001334 putative molybdopterin cofactor binding site; other site 589865001335 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 589865001336 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 589865001337 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 589865001338 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 589865001339 DNA-binding site [nucleotide binding]; DNA binding site 589865001340 RNA-binding motif; other site 589865001341 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 589865001342 Ligand Binding Site [chemical binding]; other site 589865001343 Protein of unknown function, DUF399; Region: DUF399; pfam04187 589865001344 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 589865001345 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 589865001346 protein binding site [polypeptide binding]; other site 589865001347 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 589865001348 Glucose inhibited division protein A; Region: GIDA; pfam01134 589865001349 adenylate kinase; Reviewed; Region: adk; PRK00279 589865001350 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 589865001351 AMP-binding site [chemical binding]; other site 589865001352 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 589865001353 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 589865001354 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 589865001355 putative dimer interface [polypeptide binding]; other site 589865001356 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 589865001357 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 589865001358 putative dimer interface [polypeptide binding]; other site 589865001359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 589865001360 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 589865001361 Prephenate dehydratase; Region: PDT; pfam00800 589865001362 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 589865001363 putative L-Phe binding site [chemical binding]; other site 589865001364 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 589865001365 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 589865001366 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 589865001367 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 589865001368 FtsX-like permease family; Region: FtsX; pfam02687 589865001369 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 589865001370 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 589865001371 Walker A/P-loop; other site 589865001372 ATP binding site [chemical binding]; other site 589865001373 Q-loop/lid; other site 589865001374 ABC transporter signature motif; other site 589865001375 Walker B; other site 589865001376 D-loop; other site 589865001377 H-loop/switch region; other site 589865001378 Response regulator receiver domain; Region: Response_reg; pfam00072 589865001379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865001380 active site 589865001381 phosphorylation site [posttranslational modification] 589865001382 intermolecular recognition site; other site 589865001383 dimerization interface [polypeptide binding]; other site 589865001384 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 589865001385 dimer interface [polypeptide binding]; other site 589865001386 phosphorylation site [posttranslational modification] 589865001387 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865001388 ATP binding site [chemical binding]; other site 589865001389 Mg2+ binding site [ion binding]; other site 589865001390 G-X-G motif; other site 589865001391 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865001392 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865001393 active site 589865001394 phosphorylation site [posttranslational modification] 589865001395 intermolecular recognition site; other site 589865001396 dimerization interface [polypeptide binding]; other site 589865001397 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 589865001398 Walker A motif; other site 589865001399 ATP binding site [chemical binding]; other site 589865001400 Walker B motif; other site 589865001401 arginine finger; other site 589865001402 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865001403 Bacterial SH3 domain; Region: SH3_4; pfam06347 589865001404 Bacterial SH3 domain; Region: SH3_4; pfam06347 589865001405 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 589865001406 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 589865001407 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865001408 Zn2+ binding site [ion binding]; other site 589865001409 Mg2+ binding site [ion binding]; other site 589865001410 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865001411 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 589865001412 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 589865001413 RNA binding surface [nucleotide binding]; other site 589865001414 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 589865001415 S-adenosylmethionine binding site [chemical binding]; other site 589865001416 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 589865001417 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 589865001418 active site 589865001419 substrate binding site [chemical binding]; other site 589865001420 metal binding site [ion binding]; metal-binding site 589865001421 YbbR-like protein; Region: YbbR; pfam07949 589865001422 Uncharacterized conserved protein [Function unknown]; Region: COG1624 589865001423 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 589865001424 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 589865001425 anthranilate synthase component I; Provisional; Region: PRK13565 589865001426 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 589865001427 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 589865001428 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 589865001429 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 589865001430 glutamine binding [chemical binding]; other site 589865001431 catalytic triad [active] 589865001432 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 589865001433 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 589865001434 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 589865001435 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 589865001436 active site 589865001437 ribulose/triose binding site [chemical binding]; other site 589865001438 phosphate binding site [ion binding]; other site 589865001439 substrate (anthranilate) binding pocket [chemical binding]; other site 589865001440 product (indole) binding pocket [chemical binding]; other site 589865001441 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 589865001442 active site 589865001443 Protein of unknown function (DUF342); Region: DUF342; pfam03961 589865001444 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 589865001445 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 589865001446 active site 589865001447 hydrophilic channel; other site 589865001448 dimerization interface [polypeptide binding]; other site 589865001449 catalytic residues [active] 589865001450 active site lid [active] 589865001451 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 589865001452 PhoH-like protein; Region: PhoH; pfam02562 589865001453 Thioredoxin; Region: Thioredoxin_4; pfam13462 589865001454 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 589865001455 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 589865001456 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 589865001457 Cysteine-rich domain; Region: CCG; pfam02754 589865001458 Cysteine-rich domain; Region: CCG; pfam02754 589865001459 peptide chain release factor 2; Validated; Region: prfB; PRK00578 589865001460 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 589865001461 linker region; other site 589865001462 This domain is found in peptide chain release factors; Region: PCRF; smart00937 589865001463 RF-1 domain; Region: RF-1; pfam00472 589865001464 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 589865001465 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 589865001466 putative active site [active] 589865001467 catalytic triad [active] 589865001468 putative dimer interface [polypeptide binding]; other site 589865001469 FOG: CBS domain [General function prediction only]; Region: COG0517 589865001470 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 589865001471 Transporter associated domain; Region: CorC_HlyC; smart01091 589865001472 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 589865001473 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 589865001474 ATP-grasp domain; Region: ATP-grasp_4; cl17255 589865001475 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 589865001476 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 589865001477 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 589865001478 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 589865001479 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 589865001480 lipoyl-biotinyl attachment site [posttranslational modification]; other site 589865001481 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 589865001482 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 589865001483 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 589865001484 Walker A motif; other site 589865001485 ATP binding site [chemical binding]; other site 589865001486 Walker B motif; other site 589865001487 arginine finger; other site 589865001488 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 589865001489 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 589865001490 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 589865001491 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 589865001492 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 589865001493 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 589865001494 active site 589865001495 H+ Antiporter protein; Region: 2A0121; TIGR00900 589865001496 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 589865001497 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 589865001498 AMP binding site [chemical binding]; other site 589865001499 metal binding site [ion binding]; metal-binding site 589865001500 active site 589865001501 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 589865001502 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 589865001503 FMN binding site [chemical binding]; other site 589865001504 active site 589865001505 catalytic residues [active] 589865001506 substrate binding site [chemical binding]; other site 589865001507 transketolase; Reviewed; Region: PRK12753 589865001508 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 589865001509 TPP-binding site [chemical binding]; other site 589865001510 dimer interface [polypeptide binding]; other site 589865001511 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 589865001512 PYR/PP interface [polypeptide binding]; other site 589865001513 dimer interface [polypeptide binding]; other site 589865001514 TPP binding site [chemical binding]; other site 589865001515 Lipopolysaccharide-assembly; Region: LptE; pfam04390 589865001516 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 589865001517 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 589865001518 HIGH motif; other site 589865001519 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 589865001520 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 589865001521 active site 589865001522 KMSKS motif; other site 589865001523 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 589865001524 tRNA binding surface [nucleotide binding]; other site 589865001525 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 589865001526 Trehalose phosphorylase (TP) reversibly catalyzes trehalose synthesis and degradation from alpha-glucose-1-phosphate (alpha-Glc-1-P) and glucose. The catalyzing activity includes the phosphorolysis of trehalose, which produce alpha-Glc-1-P and glucose; Region: GT1_Trehalose_phosphorylase; cd03792 589865001527 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 589865001528 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 589865001529 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 589865001530 active site 589865001531 catalytic site [active] 589865001532 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 589865001533 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 589865001534 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 589865001535 catalytic site [active] 589865001536 active site 589865001537 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 589865001538 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 589865001539 Interdomain contacts; other site 589865001540 Cytokine receptor motif; other site 589865001541 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 589865001542 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 589865001543 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 589865001544 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 589865001545 putative dimer interface [polypeptide binding]; other site 589865001546 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 589865001547 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 589865001548 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 589865001549 active site 589865001550 catalytic site [active] 589865001551 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 589865001552 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 589865001553 active site residue [active] 589865001554 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 589865001555 diiron binding motif [ion binding]; other site 589865001556 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 589865001557 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 589865001558 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 589865001559 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 589865001560 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 589865001561 MT-A70; Region: MT-A70; cl01947 589865001562 Predicted transcriptional regulator [Transcription]; Region: COG4190 589865001563 putative GTP cyclohydrolase; Provisional; Region: PRK13674 589865001564 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 589865001565 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 589865001566 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865001567 Walker A/P-loop; other site 589865001568 ATP binding site [chemical binding]; other site 589865001569 Q-loop/lid; other site 589865001570 ABC transporter signature motif; other site 589865001571 Walker B; other site 589865001572 D-loop; other site 589865001573 H-loop/switch region; other site 589865001574 malate dehydrogenase; Provisional; Region: PRK13529 589865001575 Malic enzyme, N-terminal domain; Region: malic; pfam00390 589865001576 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 589865001577 NAD(P) binding pocket [chemical binding]; other site 589865001578 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865001579 Walker A/P-loop; other site 589865001580 ATP binding site [chemical binding]; other site 589865001581 ABC transporter; Region: ABC_tran; pfam00005 589865001582 Q-loop/lid; other site 589865001583 ABC transporter signature motif; other site 589865001584 Walker B; other site 589865001585 D-loop; other site 589865001586 H-loop/switch region; other site 589865001587 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 589865001588 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 589865001589 Predicted amidohydrolase [General function prediction only]; Region: COG0388 589865001590 active site 589865001591 catalytic triad [active] 589865001592 dimer interface [polypeptide binding]; other site 589865001593 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 589865001594 RNA binding surface [nucleotide binding]; other site 589865001595 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 589865001596 purine monophosphate binding site [chemical binding]; other site 589865001597 dimer interface [polypeptide binding]; other site 589865001598 putative catalytic residues [active] 589865001599 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 589865001600 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 589865001601 active site 589865001602 substrate binding site [chemical binding]; other site 589865001603 cosubstrate binding site; other site 589865001604 catalytic site [active] 589865001605 bifunctional pyrimidine regulatory protein PyrR uracil phosphoribosyltransferase; Provisional; Region: PRK05205 589865001606 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 589865001607 active site 589865001608 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 589865001609 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865001610 ATP binding site [chemical binding]; other site 589865001611 Mg2+ binding site [ion binding]; other site 589865001612 G-X-G motif; other site 589865001613 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 589865001614 Peptidase family U32; Region: Peptidase_U32; pfam01136 589865001615 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 589865001616 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 589865001617 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 589865001618 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 589865001619 active site 589865001620 HIGH motif; other site 589865001621 nucleotide binding site [chemical binding]; other site 589865001622 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 589865001623 KMSKS motif; other site 589865001624 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 589865001625 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 589865001626 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 589865001627 HIGH motif; other site 589865001628 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 589865001629 active site 589865001630 KMSKS motif; other site 589865001631 GTPase Era; Reviewed; Region: era; PRK00089 589865001632 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 589865001633 G1 box; other site 589865001634 GTP/Mg2+ binding site [chemical binding]; other site 589865001635 Switch I region; other site 589865001636 G2 box; other site 589865001637 Switch II region; other site 589865001638 G3 box; other site 589865001639 G4 box; other site 589865001640 G5 box; other site 589865001641 KH domain; Region: KH_2; pfam07650 589865001642 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 589865001643 RNB domain; Region: RNB; pfam00773 589865001644 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 589865001645 active site 589865001646 GAF domain; Region: GAF_3; pfam13492 589865001647 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 589865001648 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865001649 Zn2+ binding site [ion binding]; other site 589865001650 Mg2+ binding site [ion binding]; other site 589865001651 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865001652 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865001653 active site 589865001654 phosphorylation site [posttranslational modification] 589865001655 intermolecular recognition site; other site 589865001656 dimerization interface [polypeptide binding]; other site 589865001657 GTP-binding protein YchF; Reviewed; Region: PRK09601 589865001658 YchF GTPase; Region: YchF; cd01900 589865001659 G1 box; other site 589865001660 GTP/Mg2+ binding site [chemical binding]; other site 589865001661 Switch I region; other site 589865001662 G2 box; other site 589865001663 Switch II region; other site 589865001664 G3 box; other site 589865001665 G4 box; other site 589865001666 G5 box; other site 589865001667 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 589865001668 Protein of unknown function (DUF721); Region: DUF721; pfam05258 589865001669 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 589865001670 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865001671 dimer interface [polypeptide binding]; other site 589865001672 putative CheW interface [polypeptide binding]; other site 589865001673 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 589865001674 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 589865001675 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 589865001676 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 589865001677 RNA methyltransferase, RsmE family; Region: TIGR00046 589865001678 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 589865001679 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 589865001680 S-adenosylmethionine binding site [chemical binding]; other site 589865001681 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 589865001682 AIR carboxylase; Region: AIRC; smart01001 589865001683 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 589865001684 Predicted solute binding protein [General function prediction only]; Region: COG3889 589865001685 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 589865001686 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 589865001687 dimer interface [polypeptide binding]; other site 589865001688 conserved gate region; other site 589865001689 putative PBP binding loops; other site 589865001690 ABC-ATPase subunit interface; other site 589865001691 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 589865001692 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 589865001693 dimer interface [polypeptide binding]; other site 589865001694 conserved gate region; other site 589865001695 putative PBP binding loops; other site 589865001696 ABC-ATPase subunit interface; other site 589865001697 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 589865001698 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 589865001699 Walker A/P-loop; other site 589865001700 ATP binding site [chemical binding]; other site 589865001701 Q-loop/lid; other site 589865001702 ABC transporter signature motif; other site 589865001703 Walker B; other site 589865001704 D-loop; other site 589865001705 H-loop/switch region; other site 589865001706 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 589865001707 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 589865001708 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 589865001709 Walker A/P-loop; other site 589865001710 ATP binding site [chemical binding]; other site 589865001711 Q-loop/lid; other site 589865001712 ABC transporter signature motif; other site 589865001713 Walker B; other site 589865001714 D-loop; other site 589865001715 H-loop/switch region; other site 589865001716 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 589865001717 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865001718 Zn2+ binding site [ion binding]; other site 589865001719 Mg2+ binding site [ion binding]; other site 589865001720 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 589865001721 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 589865001722 substrate binding site [chemical binding]; other site 589865001723 ligand binding site [chemical binding]; other site 589865001724 3-isopropylmalate dehydratase small subunit [Amino acid transport and metabolism]; Region: LeuD; COG0066 589865001725 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 589865001726 substrate binding site [chemical binding]; other site 589865001727 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 589865001728 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 589865001729 S-adenosylmethionine binding site [chemical binding]; other site 589865001730 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 589865001731 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 589865001732 Rubrerythrin [Energy production and conversion]; Region: COG1592 589865001733 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 589865001734 binuclear metal center [ion binding]; other site 589865001735 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 589865001736 iron binding site [ion binding]; other site 589865001737 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 589865001738 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 589865001739 domain interfaces; other site 589865001740 active site 589865001741 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 589865001742 active site 589865001743 SAM binding site [chemical binding]; other site 589865001744 homodimer interface [polypeptide binding]; other site 589865001745 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 589865001746 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 589865001747 active site 589865001748 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 589865001749 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 589865001750 active site 589865001751 catalytic triad [active] 589865001752 oxyanion hole [active] 589865001753 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865001754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865001755 active site 589865001756 phosphorylation site [posttranslational modification] 589865001757 intermolecular recognition site; other site 589865001758 dimerization interface [polypeptide binding]; other site 589865001759 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 589865001760 Walker A motif; other site 589865001761 ATP binding site [chemical binding]; other site 589865001762 Walker B motif; other site 589865001763 arginine finger; other site 589865001764 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865001765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 589865001766 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 589865001767 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 589865001768 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 589865001769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 589865001770 Peptidase M15; Region: Peptidase_M15_3; cl01194 589865001771 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 589865001772 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 589865001773 2-isopropylmalate synthase; Validated; Region: PRK00915 589865001774 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 589865001775 active site 589865001776 catalytic residues [active] 589865001777 metal binding site [ion binding]; metal-binding site 589865001778 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 589865001779 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 589865001780 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 589865001781 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 589865001782 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 589865001783 S-adenosylmethionine binding site [chemical binding]; other site 589865001784 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 589865001785 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 589865001786 active site 589865001787 (T/H)XGH motif; other site 589865001788 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 589865001789 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 589865001790 putative [Fe4-S4] binding site [ion binding]; other site 589865001791 putative molybdopterin cofactor binding site [chemical binding]; other site 589865001792 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 589865001793 putative molybdopterin cofactor binding site; other site 589865001794 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 589865001795 S-adenosylmethionine binding site [chemical binding]; other site 589865001796 Nitrate and nitrite sensing; Region: NIT; pfam08376 589865001797 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 589865001798 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865001799 dimer interface [polypeptide binding]; other site 589865001800 putative CheW interface [polypeptide binding]; other site 589865001801 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 589865001802 putative MPT binding site; other site 589865001803 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 589865001804 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 589865001805 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 589865001806 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865001807 PAS domain; Region: PAS_9; pfam13426 589865001808 putative active site [active] 589865001809 heme pocket [chemical binding]; other site 589865001810 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 589865001811 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 589865001812 Walker A motif; other site 589865001813 ATP binding site [chemical binding]; other site 589865001814 Walker B motif; other site 589865001815 arginine finger; other site 589865001816 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865001817 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 589865001818 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 589865001819 NAD(P) binding site [chemical binding]; other site 589865001820 catalytic residues [active] 589865001821 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 589865001822 metal-binding site [ion binding] 589865001823 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 589865001824 Flavoprotein; Region: Flavoprotein; pfam02441 589865001825 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 589865001826 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 589865001827 putative FMN binding site [chemical binding]; other site 589865001828 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 589865001829 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 589865001830 active site 589865001831 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 589865001832 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 589865001833 catalytic residue [active] 589865001834 Rdx family; Region: Rdx; pfam10262 589865001835 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 589865001836 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 589865001837 Isochorismatase family; Region: Isochorismatase; pfam00857 589865001838 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 589865001839 catalytic triad [active] 589865001840 dimer interface [polypeptide binding]; other site 589865001841 conserved cis-peptide bond; other site 589865001842 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 589865001843 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 589865001844 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 589865001845 Coenzyme A binding pocket [chemical binding]; other site 589865001846 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 589865001847 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 589865001848 FeS/SAM binding site; other site 589865001849 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 589865001850 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 589865001851 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 589865001852 FeS/SAM binding site; other site 589865001853 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 589865001854 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 589865001855 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 589865001856 active site 589865001857 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 589865001858 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 589865001859 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 589865001860 S-adenosylmethionine binding site [chemical binding]; other site 589865001861 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 589865001862 Flavoprotein; Region: Flavoprotein; pfam02441 589865001863 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 589865001864 UbiA prenyltransferase family; Region: UbiA; pfam01040 589865001865 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 589865001866 putative ligand binding pocket/active site [active] 589865001867 putative metal binding site [ion binding]; other site 589865001868 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 589865001869 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 589865001870 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 589865001871 TrkA-N domain; Region: TrkA_N; pfam02254 589865001872 TrkA-N domain; Region: TrkA_N; pfam02254 589865001873 TrkA-C domain; Region: TrkA_C; pfam02080 589865001874 Bifunctional nuclease; Region: DNase-RNase; pfam02577 589865001875 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 589865001876 protein binding site [polypeptide binding]; other site 589865001877 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 589865001878 arsenical-resistance protein; Region: acr3; TIGR00832 589865001879 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 589865001880 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 589865001881 P loop; other site 589865001882 Nucleotide binding site [chemical binding]; other site 589865001883 DTAP/Switch II; other site 589865001884 Switch I; other site 589865001885 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 589865001886 DTAP/Switch II; other site 589865001887 Switch I; other site 589865001888 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 589865001889 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 589865001890 Low molecular weight phosphatase family; Region: LMWPc; cd00115 589865001891 active site 589865001892 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 589865001893 putative Zn2+ binding site [ion binding]; other site 589865001894 putative DNA binding site [nucleotide binding]; other site 589865001895 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 589865001896 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 589865001897 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 589865001898 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 589865001899 Protein export membrane protein; Region: SecD_SecF; cl14618 589865001900 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 589865001901 MPN+ (JAMM) motif; other site 589865001902 Zinc-binding site [ion binding]; other site 589865001903 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 589865001904 YcaO-like family; Region: YcaO; pfam02624 589865001905 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 589865001906 binding surface 589865001907 TPR motif; other site 589865001908 TPR repeat; Region: TPR_11; pfam13414 589865001909 TPR repeat; Region: TPR_11; pfam13414 589865001910 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 589865001911 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 589865001912 putative acyl-acceptor binding pocket; other site 589865001913 PrcB C-terminal; Region: PrcB_C; pfam14343 589865001914 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 589865001915 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 589865001916 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 589865001917 catalytic site [active] 589865001918 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 589865001919 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 589865001920 Surface antigen; Region: Bac_surface_Ag; pfam01103 589865001921 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 589865001922 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 589865001923 active site 589865001924 HIGH motif; other site 589865001925 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 589865001926 KMSKS motif; other site 589865001927 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 589865001928 tRNA binding surface [nucleotide binding]; other site 589865001929 anticodon binding site; other site 589865001930 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 589865001931 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 589865001932 ligand binding site [chemical binding]; other site 589865001933 NAD binding site [chemical binding]; other site 589865001934 dimerization interface [polypeptide binding]; other site 589865001935 catalytic site [active] 589865001936 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 589865001937 putative L-serine binding site [chemical binding]; other site 589865001938 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 589865001939 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 589865001940 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 589865001941 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 589865001942 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 589865001943 active site 589865001944 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 589865001945 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 589865001946 5S rRNA interface [nucleotide binding]; other site 589865001947 CTC domain interface [polypeptide binding]; other site 589865001948 L16 interface [polypeptide binding]; other site 589865001949 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 589865001950 putative active site [active] 589865001951 catalytic residue [active] 589865001952 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 589865001953 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 589865001954 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 589865001955 RNA binding surface [nucleotide binding]; other site 589865001956 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 589865001957 active site 589865001958 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 589865001959 dephospho-CoA kinase; Region: TIGR00152 589865001960 CoA-binding site [chemical binding]; other site 589865001961 ATP-binding [chemical binding]; other site 589865001962 transcription termination factor Rho; Provisional; Region: rho; PRK09376 589865001963 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 589865001964 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 589865001965 RNA binding site [nucleotide binding]; other site 589865001966 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 589865001967 multimer interface [polypeptide binding]; other site 589865001968 Walker A motif; other site 589865001969 ATP binding site [chemical binding]; other site 589865001970 Walker B motif; other site 589865001971 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 589865001972 peptide chain release factor 1; Validated; Region: prfA; PRK00591 589865001973 This domain is found in peptide chain release factors; Region: PCRF; smart00937 589865001974 RF-1 domain; Region: RF-1; pfam00472 589865001975 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 589865001976 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 589865001977 S-adenosylmethionine binding site [chemical binding]; other site 589865001978 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 589865001979 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 589865001980 hinge; other site 589865001981 active site 589865001982 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 589865001983 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865001984 putative active site [active] 589865001985 heme pocket [chemical binding]; other site 589865001986 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 589865001987 dimer interface [polypeptide binding]; other site 589865001988 phosphorylation site [posttranslational modification] 589865001989 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865001990 ATP binding site [chemical binding]; other site 589865001991 Mg2+ binding site [ion binding]; other site 589865001992 G-X-G motif; other site 589865001993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 589865001994 MORN repeat; Region: MORN; cl14787 589865001995 MORN repeat; Region: MORN; cl14787 589865001996 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 589865001997 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 589865001998 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 589865001999 active site 589865002000 NAD binding site [chemical binding]; other site 589865002001 metal binding site [ion binding]; metal-binding site 589865002002 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 589865002003 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 589865002004 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 589865002005 UGMP family protein; Validated; Region: PRK09604 589865002006 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 589865002007 Chorismate mutase type II; Region: CM_2; pfam01817 589865002008 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 589865002009 Prephenate dehydratase; Region: PDT; pfam00800 589865002010 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 589865002011 putative L-Phe binding site [chemical binding]; other site 589865002012 FOG: CBS domain [General function prediction only]; Region: COG0517 589865002013 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 589865002014 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 589865002015 TIGR00268 family protein; Region: TIGR00268 589865002016 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 589865002017 Ligand Binding Site [chemical binding]; other site 589865002018 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 589865002019 IHF dimer interface [polypeptide binding]; other site 589865002020 IHF - DNA interface [nucleotide binding]; other site 589865002021 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 589865002022 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 589865002023 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 589865002024 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 589865002025 ZIP Zinc transporter; Region: Zip; pfam02535 589865002026 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 589865002027 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 589865002028 Protein export membrane protein; Region: SecD_SecF; cl14618 589865002029 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 589865002030 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 589865002031 HlyD family secretion protein; Region: HlyD_3; pfam13437 589865002032 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 589865002033 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 589865002034 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 589865002035 putative FMN binding site [chemical binding]; other site 589865002036 Mechanosensitive ion channel; Region: MS_channel; pfam00924 589865002037 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 589865002038 Septum formation initiator; Region: DivIC; pfam04977 589865002039 Nitrogen regulatory protein P-II; Region: P-II; smart00938 589865002040 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 589865002041 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 589865002042 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 589865002043 conserved cys residue [active] 589865002044 Flagellin N-methylase; Region: FliB; pfam03692 589865002045 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 589865002046 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 589865002047 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 589865002048 Protein export membrane protein; Region: SecD_SecF; pfam02355 589865002049 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002050 PAS fold; Region: PAS_3; pfam08447 589865002051 putative active site [active] 589865002052 heme pocket [chemical binding]; other site 589865002053 PAS domain S-box; Region: sensory_box; TIGR00229 589865002054 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002055 putative active site [active] 589865002056 heme pocket [chemical binding]; other site 589865002057 PAS fold; Region: PAS_3; pfam08447 589865002058 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 589865002059 PAS domain; Region: PAS_9; pfam13426 589865002060 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002061 putative active site [active] 589865002062 heme pocket [chemical binding]; other site 589865002063 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 589865002064 dimer interface [polypeptide binding]; other site 589865002065 phosphorylation site [posttranslational modification] 589865002066 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002067 ATP binding site [chemical binding]; other site 589865002068 Mg2+ binding site [ion binding]; other site 589865002069 G-X-G motif; other site 589865002070 Response regulator receiver domain; Region: Response_reg; pfam00072 589865002071 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002072 active site 589865002073 phosphorylation site [posttranslational modification] 589865002074 intermolecular recognition site; other site 589865002075 dimerization interface [polypeptide binding]; other site 589865002076 Response regulator receiver domain; Region: Response_reg; pfam00072 589865002077 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002078 active site 589865002079 phosphorylation site [posttranslational modification] 589865002080 intermolecular recognition site; other site 589865002081 dimerization interface [polypeptide binding]; other site 589865002082 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 589865002083 putative binding surface; other site 589865002084 active site 589865002085 Response regulator receiver domain; Region: Response_reg; pfam00072 589865002086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002087 active site 589865002088 phosphorylation site [posttranslational modification] 589865002089 intermolecular recognition site; other site 589865002090 dimerization interface [polypeptide binding]; other site 589865002091 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865002092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865002093 metal binding site [ion binding]; metal-binding site 589865002094 active site 589865002095 I-site; other site 589865002096 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 589865002097 phosphoglyceromutase; Provisional; Region: PRK05434 589865002098 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 589865002099 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 589865002100 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 589865002101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865002102 catalytic residue [active] 589865002103 purine nucleoside phosphorylase; Provisional; Region: PRK08202 589865002104 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 589865002105 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 589865002106 active site 589865002107 putative substrate binding pocket [chemical binding]; other site 589865002108 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 589865002109 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002110 ATP binding site [chemical binding]; other site 589865002111 Mg2+ binding site [ion binding]; other site 589865002112 G-X-G motif; other site 589865002113 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 589865002114 PAS domain; Region: PAS_9; pfam13426 589865002115 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002116 putative active site [active] 589865002117 heme pocket [chemical binding]; other site 589865002118 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 589865002119 dimer interface [polypeptide binding]; other site 589865002120 phosphorylation site [posttranslational modification] 589865002121 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002122 ATP binding site [chemical binding]; other site 589865002123 G-X-G motif; other site 589865002124 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865002125 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002126 active site 589865002127 phosphorylation site [posttranslational modification] 589865002128 intermolecular recognition site; other site 589865002129 dimerization interface [polypeptide binding]; other site 589865002130 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 589865002131 Walker A motif; other site 589865002132 ATP binding site [chemical binding]; other site 589865002133 Walker B motif; other site 589865002134 arginine finger; other site 589865002135 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865002136 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 589865002137 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 589865002138 substrate binding pocket [chemical binding]; other site 589865002139 membrane-bound complex binding site; other site 589865002140 hinge residues; other site 589865002141 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 589865002142 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002143 putative active site [active] 589865002144 heme pocket [chemical binding]; other site 589865002145 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 589865002146 dimer interface [polypeptide binding]; other site 589865002147 phosphorylation site [posttranslational modification] 589865002148 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002149 ATP binding site [chemical binding]; other site 589865002150 Mg2+ binding site [ion binding]; other site 589865002151 G-X-G motif; other site 589865002152 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865002153 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002154 active site 589865002155 phosphorylation site [posttranslational modification] 589865002156 intermolecular recognition site; other site 589865002157 dimerization interface [polypeptide binding]; other site 589865002158 PAS domain S-box; Region: sensory_box; TIGR00229 589865002159 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 589865002160 Transposase, Mutator family; Region: Transposase_mut; pfam00872 589865002161 MULE transposase domain; Region: MULE; pfam10551 589865002162 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 589865002163 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002164 PAS fold; Region: PAS_3; pfam08447 589865002165 putative active site [active] 589865002166 heme pocket [chemical binding]; other site 589865002167 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 589865002168 dimer interface [polypeptide binding]; other site 589865002169 phosphorylation site [posttranslational modification] 589865002170 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002171 ATP binding site [chemical binding]; other site 589865002172 Mg2+ binding site [ion binding]; other site 589865002173 G-X-G motif; other site 589865002174 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865002175 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002176 active site 589865002177 phosphorylation site [posttranslational modification] 589865002178 intermolecular recognition site; other site 589865002179 dimerization interface [polypeptide binding]; other site 589865002180 Response regulator receiver domain; Region: Response_reg; pfam00072 589865002181 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002182 active site 589865002183 phosphorylation site [posttranslational modification] 589865002184 intermolecular recognition site; other site 589865002185 dimerization interface [polypeptide binding]; other site 589865002186 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 589865002187 dimer interface [polypeptide binding]; other site 589865002188 phosphorylation site [posttranslational modification] 589865002189 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002190 ATP binding site [chemical binding]; other site 589865002191 Mg2+ binding site [ion binding]; other site 589865002192 G-X-G motif; other site 589865002193 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 589865002194 putative CheA interaction surface; other site 589865002195 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 589865002196 dimerization interface [polypeptide binding]; other site 589865002197 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865002198 dimer interface [polypeptide binding]; other site 589865002199 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 589865002200 putative CheW interface [polypeptide binding]; other site 589865002201 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 589865002202 dimerization interface [polypeptide binding]; other site 589865002203 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 589865002204 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865002205 dimer interface [polypeptide binding]; other site 589865002206 putative CheW interface [polypeptide binding]; other site 589865002207 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 589865002208 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 589865002209 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 589865002210 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 589865002211 dimerization interface [polypeptide binding]; other site 589865002212 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865002213 dimer interface [polypeptide binding]; other site 589865002214 putative CheW interface [polypeptide binding]; other site 589865002215 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865002216 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002217 active site 589865002218 phosphorylation site [posttranslational modification] 589865002219 intermolecular recognition site; other site 589865002220 dimerization interface [polypeptide binding]; other site 589865002221 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 589865002222 NMT1-like family; Region: NMT1_2; pfam13379 589865002223 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 589865002224 putative CheA interaction surface; other site 589865002225 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 589865002226 dimerization interface [polypeptide binding]; other site 589865002227 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865002228 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 589865002229 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865002230 dimer interface [polypeptide binding]; other site 589865002231 putative CheW interface [polypeptide binding]; other site 589865002232 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 589865002233 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 589865002234 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 589865002235 S-adenosylmethionine binding site [chemical binding]; other site 589865002236 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 589865002237 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002238 active site 589865002239 phosphorylation site [posttranslational modification] 589865002240 intermolecular recognition site; other site 589865002241 dimerization interface [polypeptide binding]; other site 589865002242 CheB methylesterase; Region: CheB_methylest; pfam01339 589865002243 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 589865002244 putative binding surface; other site 589865002245 active site 589865002246 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 589865002247 putative binding surface; other site 589865002248 active site 589865002249 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 589865002250 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 589865002251 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002252 ATP binding site [chemical binding]; other site 589865002253 Mg2+ binding site [ion binding]; other site 589865002254 G-X-G motif; other site 589865002255 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 589865002256 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 589865002257 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 589865002258 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002259 active site 589865002260 phosphorylation site [posttranslational modification] 589865002261 intermolecular recognition site; other site 589865002262 dimerization interface [polypeptide binding]; other site 589865002263 CheD chemotactic sensory transduction; Region: CheD; cl00810 589865002264 HDOD domain; Region: HDOD; pfam08668 589865002265 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865002266 Zn2+ binding site [ion binding]; other site 589865002267 Mg2+ binding site [ion binding]; other site 589865002268 Response regulator receiver domain; Region: Response_reg; pfam00072 589865002269 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002270 active site 589865002271 phosphorylation site [posttranslational modification] 589865002272 intermolecular recognition site; other site 589865002273 dimerization interface [polypeptide binding]; other site 589865002274 Chemotaxis phosphatase CheX; Region: CheX; cl15816 589865002275 Response regulator receiver domain; Region: Response_reg; pfam00072 589865002276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002277 active site 589865002278 phosphorylation site [posttranslational modification] 589865002279 intermolecular recognition site; other site 589865002280 dimerization interface [polypeptide binding]; other site 589865002281 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 589865002282 Hpt domain; Region: Hpt; pfam01627 589865002283 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002284 ATP binding site [chemical binding]; other site 589865002285 Mg2+ binding site [ion binding]; other site 589865002286 G-X-G motif; other site 589865002287 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 589865002288 Fungal protein of unknown function (DUF2015); Region: DUF2015; pfam09435 589865002289 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 589865002290 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 589865002291 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002292 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 589865002293 putative active site [active] 589865002294 heme pocket [chemical binding]; other site 589865002295 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 589865002296 dimer interface [polypeptide binding]; other site 589865002297 phosphorylation site [posttranslational modification] 589865002298 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002299 ATP binding site [chemical binding]; other site 589865002300 Mg2+ binding site [ion binding]; other site 589865002301 G-X-G motif; other site 589865002302 mercuric reductase; Validated; Region: PRK06370 589865002303 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 589865002304 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 589865002305 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 589865002306 Uncharacterized conserved protein [Function unknown]; Region: COG0398 589865002307 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 589865002308 Cytochrome c [Energy production and conversion]; Region: COG3258 589865002309 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 589865002310 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 589865002311 FeS/SAM binding site; other site 589865002312 Methyltransferase domain; Region: Methyltransf_31; pfam13847 589865002313 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 589865002314 S-adenosylmethionine binding site [chemical binding]; other site 589865002315 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 589865002316 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 589865002317 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002318 putative active site [active] 589865002319 heme pocket [chemical binding]; other site 589865002320 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 589865002321 dimer interface [polypeptide binding]; other site 589865002322 phosphorylation site [posttranslational modification] 589865002323 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002324 ATP binding site [chemical binding]; other site 589865002325 Mg2+ binding site [ion binding]; other site 589865002326 G-X-G motif; other site 589865002327 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002328 PAS fold; Region: PAS_3; pfam08447 589865002329 putative active site [active] 589865002330 heme pocket [chemical binding]; other site 589865002331 GAF domain; Region: GAF; pfam01590 589865002332 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 589865002333 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002334 ATP binding site [chemical binding]; other site 589865002335 Mg2+ binding site [ion binding]; other site 589865002336 G-X-G motif; other site 589865002337 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 589865002338 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 589865002339 ABC-ATPase subunit interface; other site 589865002340 dimer interface [polypeptide binding]; other site 589865002341 putative PBP binding regions; other site 589865002342 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 589865002343 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 589865002344 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 589865002345 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 589865002346 intersubunit interface [polypeptide binding]; other site 589865002347 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 589865002348 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 589865002349 active site 589865002350 zinc binding site [ion binding]; other site 589865002351 Na+ binding site [ion binding]; other site 589865002352 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 589865002353 DNA-binding site [nucleotide binding]; DNA binding site 589865002354 RNA-binding motif; other site 589865002355 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 589865002356 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 589865002357 ligand binding site [chemical binding]; other site 589865002358 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 589865002359 DHH family; Region: DHH; pfam01368 589865002360 DHHA2 domain; Region: DHHA2; pfam02833 589865002361 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 589865002362 active site 589865002363 metal binding site [ion binding]; metal-binding site 589865002364 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 589865002365 recombination factor protein RarA; Reviewed; Region: PRK13342 589865002366 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 589865002367 ATP binding site [chemical binding]; other site 589865002368 Walker B motif; other site 589865002369 arginine finger; other site 589865002370 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 589865002371 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 589865002372 active site 589865002373 ATP binding site [chemical binding]; other site 589865002374 substrate binding site [chemical binding]; other site 589865002375 activation loop (A-loop); other site 589865002376 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; cd00200 589865002377 FOG: WD40 repeat [General function prediction only]; Region: COG2319 589865002378 structural tetrad; other site 589865002379 Peptidase family M48; Region: Peptidase_M48; cl12018 589865002380 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 589865002381 binding surface 589865002382 TPR motif; other site 589865002383 TPR repeat; Region: TPR_11; pfam13414 589865002384 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 589865002385 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 589865002386 Walker A/P-loop; other site 589865002387 ATP binding site [chemical binding]; other site 589865002388 Q-loop/lid; other site 589865002389 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 589865002390 ABC transporter signature motif; other site 589865002391 Walker B; other site 589865002392 D-loop; other site 589865002393 H-loop/switch region; other site 589865002394 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 589865002395 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 589865002396 Ligand Binding Site [chemical binding]; other site 589865002397 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 589865002398 PLD-like domain; Region: PLDc_2; pfam13091 589865002399 putative active site [active] 589865002400 catalytic site [active] 589865002401 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 589865002402 PLD-like domain; Region: PLDc_2; pfam13091 589865002403 putative active site [active] 589865002404 catalytic site [active] 589865002405 4Fe-4S binding domain; Region: Fer4_5; pfam12801 589865002406 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 589865002407 4Fe-4S binding domain; Region: Fer4; pfam00037 589865002408 Uncharacterized conserved protein [Function unknown]; Region: COG2006 589865002409 Domain of unknown function (DUF362); Region: DUF362; pfam04015 589865002410 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 589865002411 agmatinase; Region: agmatinase; TIGR01230 589865002412 putative active site [active] 589865002413 Mn binding site [ion binding]; other site 589865002414 Flagellin N-methylase; Region: FliB; pfam03692 589865002415 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 589865002416 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 589865002417 Response regulator receiver domain; Region: Response_reg; pfam00072 589865002418 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002419 active site 589865002420 phosphorylation site [posttranslational modification] 589865002421 intermolecular recognition site; other site 589865002422 dimerization interface [polypeptide binding]; other site 589865002423 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 589865002424 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 589865002425 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 589865002426 Family description; Region: UvrD_C_2; pfam13538 589865002427 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 589865002428 active site 589865002429 catalytic site [active] 589865002430 substrate binding site [chemical binding]; other site 589865002431 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 589865002432 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 589865002433 motif II; other site 589865002434 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 589865002435 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 589865002436 RNA binding site [nucleotide binding]; other site 589865002437 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 589865002438 RNA binding site [nucleotide binding]; other site 589865002439 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 589865002440 RNA binding site [nucleotide binding]; other site 589865002441 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 589865002442 RNA binding site [nucleotide binding]; other site 589865002443 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 589865002444 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 589865002445 putative ligand binding site [chemical binding]; other site 589865002446 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 589865002447 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 589865002448 dimer interface [polypeptide binding]; other site 589865002449 phosphorylation site [posttranslational modification] 589865002450 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002451 ATP binding site [chemical binding]; other site 589865002452 Mg2+ binding site [ion binding]; other site 589865002453 G-X-G motif; other site 589865002454 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 589865002455 AAA domain; Region: AAA_30; pfam13604 589865002456 Family description; Region: UvrD_C_2; pfam13538 589865002457 Putative Fe-S cluster; Region: FeS; pfam04060 589865002458 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 589865002459 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 589865002460 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 589865002461 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 589865002462 generic binding surface II; other site 589865002463 generic binding surface I; other site 589865002464 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 589865002465 binding surface 589865002466 TPR motif; other site 589865002467 Pantoate-beta-alanine ligase; Region: PanC; cd00560 589865002468 pantoate--beta-alanine ligase; Region: panC; TIGR00018 589865002469 active site 589865002470 ATP-binding site [chemical binding]; other site 589865002471 pantoate-binding site; other site 589865002472 HXXH motif; other site 589865002473 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 589865002474 tetramerization interface [polypeptide binding]; other site 589865002475 active site 589865002476 futalosine nucleosidase; Region: fut_nucase; TIGR03664 589865002477 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 589865002478 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 589865002479 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 589865002480 PYR/PP interface [polypeptide binding]; other site 589865002481 dimer interface [polypeptide binding]; other site 589865002482 TPP binding site [chemical binding]; other site 589865002483 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 589865002484 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 589865002485 TPP-binding site [chemical binding]; other site 589865002486 dimer interface [polypeptide binding]; other site 589865002487 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 589865002488 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 589865002489 putative valine binding site [chemical binding]; other site 589865002490 dimer interface [polypeptide binding]; other site 589865002491 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 589865002492 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 589865002493 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 589865002494 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 589865002495 ATP binding site [chemical binding]; other site 589865002496 putative Mg++ binding site [ion binding]; other site 589865002497 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 589865002498 nucleotide binding region [chemical binding]; other site 589865002499 ATP-binding site [chemical binding]; other site 589865002500 Helicase associated domain (HA2); Region: HA2; pfam04408 589865002501 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 589865002502 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 589865002503 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 589865002504 binding surface 589865002505 TPR motif; other site 589865002506 TPR repeat; Region: TPR_11; pfam13414 589865002507 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 589865002508 binding surface 589865002509 TPR motif; other site 589865002510 TPR repeat; Region: TPR_11; pfam13414 589865002511 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 589865002512 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 589865002513 S-adenosylmethionine binding site [chemical binding]; other site 589865002514 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 589865002515 dimer interface [polypeptide binding]; other site 589865002516 phosphorylation site [posttranslational modification] 589865002517 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 589865002518 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002519 active site 589865002520 phosphorylation site [posttranslational modification] 589865002521 intermolecular recognition site; other site 589865002522 dimerization interface [polypeptide binding]; other site 589865002523 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865002524 Zn2+ binding site [ion binding]; other site 589865002525 Mg2+ binding site [ion binding]; other site 589865002526 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 589865002527 dimer interface [polypeptide binding]; other site 589865002528 phosphorylation site [posttranslational modification] 589865002529 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002530 ATP binding site [chemical binding]; other site 589865002531 Mg2+ binding site [ion binding]; other site 589865002532 G-X-G motif; other site 589865002533 Uncharacterized conserved protein [Function unknown]; Region: COG3287 589865002534 FIST N domain; Region: FIST; pfam08495 589865002535 FIST C domain; Region: FIST_C; pfam10442 589865002536 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865002537 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002538 active site 589865002539 phosphorylation site [posttranslational modification] 589865002540 intermolecular recognition site; other site 589865002541 dimerization interface [polypeptide binding]; other site 589865002542 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 589865002543 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 589865002544 putative dimer interface [polypeptide binding]; other site 589865002545 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 589865002546 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 589865002547 Walker A motif; other site 589865002548 ATP binding site [chemical binding]; other site 589865002549 Walker B motif; other site 589865002550 arginine finger; other site 589865002551 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 589865002552 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 589865002553 Mechanosensitive ion channel; Region: MS_channel; pfam00924 589865002554 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 589865002555 Major Facilitator Superfamily; Region: MFS_1; pfam07690 589865002556 putative substrate translocation pore; other site 589865002557 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 589865002558 Peptidase family M50; Region: Peptidase_M50; pfam02163 589865002559 active site 589865002560 putative substrate binding region [chemical binding]; other site 589865002561 ParB-like nuclease domain; Region: ParB; smart00470 589865002562 RibD C-terminal domain; Region: RibD_C; cl17279 589865002563 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 589865002564 Asparagine synthase; Region: Asn_synthase; pfam00733 589865002565 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 589865002566 ligand binding site [chemical binding]; other site 589865002567 active site 589865002568 UGI interface [polypeptide binding]; other site 589865002569 catalytic site [active] 589865002570 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 589865002571 PemK-like protein; Region: PemK; pfam02452 589865002572 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865002573 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865002574 metal binding site [ion binding]; metal-binding site 589865002575 active site 589865002576 I-site; other site 589865002577 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 589865002578 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 589865002579 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 589865002580 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 589865002581 dimer interface [polypeptide binding]; other site 589865002582 phosphorylation site [posttranslational modification] 589865002583 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002584 ATP binding site [chemical binding]; other site 589865002585 Mg2+ binding site [ion binding]; other site 589865002586 G-X-G motif; other site 589865002587 Response regulator receiver domain; Region: Response_reg; pfam00072 589865002588 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002589 active site 589865002590 phosphorylation site [posttranslational modification] 589865002591 intermolecular recognition site; other site 589865002592 dimerization interface [polypeptide binding]; other site 589865002593 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 589865002594 dimerization interface [polypeptide binding]; other site 589865002595 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 589865002596 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 589865002597 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865002598 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 589865002599 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865002600 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865002601 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 589865002602 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865002603 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865002604 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 589865002605 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 589865002606 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865002607 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 589865002608 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865002609 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865002610 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865002611 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865002612 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865002613 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 589865002614 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 589865002615 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 589865002616 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 589865002617 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865002618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002619 active site 589865002620 phosphorylation site [posttranslational modification] 589865002621 intermolecular recognition site; other site 589865002622 dimerization interface [polypeptide binding]; other site 589865002623 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 589865002624 Walker A motif; other site 589865002625 ATP binding site [chemical binding]; other site 589865002626 Walker B motif; other site 589865002627 arginine finger; other site 589865002628 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865002629 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865002630 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865002631 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 589865002632 NHL repeat; Region: NHL; pfam01436 589865002633 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002634 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 589865002635 putative active site [active] 589865002636 heme pocket [chemical binding]; other site 589865002637 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 589865002638 dimer interface [polypeptide binding]; other site 589865002639 phosphorylation site [posttranslational modification] 589865002640 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002641 ATP binding site [chemical binding]; other site 589865002642 Mg2+ binding site [ion binding]; other site 589865002643 G-X-G motif; other site 589865002644 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 589865002645 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002646 PAS domain; Region: PAS_9; pfam13426 589865002647 putative active site [active] 589865002648 heme pocket [chemical binding]; other site 589865002649 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002650 PAS domain; Region: PAS_9; pfam13426 589865002651 putative active site [active] 589865002652 heme pocket [chemical binding]; other site 589865002653 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002654 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 589865002655 putative active site [active] 589865002656 heme pocket [chemical binding]; other site 589865002657 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002658 putative active site [active] 589865002659 heme pocket [chemical binding]; other site 589865002660 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865002661 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865002662 metal binding site [ion binding]; metal-binding site 589865002663 active site 589865002664 I-site; other site 589865002665 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 589865002666 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 589865002667 binding surface 589865002668 TPR motif; other site 589865002669 TPR repeat; Region: TPR_11; pfam13414 589865002670 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 589865002671 binding surface 589865002672 TPR motif; other site 589865002673 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 589865002674 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 589865002675 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 589865002676 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 589865002677 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 589865002678 ATP binding site [chemical binding]; other site 589865002679 Walker A motif; other site 589865002680 hexamer interface [polypeptide binding]; other site 589865002681 Walker B motif; other site 589865002682 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 589865002683 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 589865002684 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 589865002685 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 589865002686 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 589865002687 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 589865002688 Flp/Fap pilin component; Region: Flp_Fap; pfam04964 589865002689 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 589865002690 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 589865002691 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 589865002692 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 589865002693 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 589865002694 ResB-like family; Region: ResB; pfam05140 589865002695 Cytochrome c; Region: Cytochrom_C; pfam00034 589865002696 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 589865002697 putative active site [active] 589865002698 GAF domain; Region: GAF_3; pfam13492 589865002699 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865002700 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865002701 metal binding site [ion binding]; metal-binding site 589865002702 active site 589865002703 I-site; other site 589865002704 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 589865002705 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 589865002706 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 589865002707 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 589865002708 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 589865002709 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 589865002710 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 589865002711 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 589865002712 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 589865002713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865002714 Walker A/P-loop; other site 589865002715 ATP binding site [chemical binding]; other site 589865002716 Q-loop/lid; other site 589865002717 ABC transporter signature motif; other site 589865002718 Walker B; other site 589865002719 D-loop; other site 589865002720 H-loop/switch region; other site 589865002721 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 589865002722 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865002723 Walker A/P-loop; other site 589865002724 ATP binding site [chemical binding]; other site 589865002725 Q-loop/lid; other site 589865002726 ABC transporter signature motif; other site 589865002727 Walker B; other site 589865002728 D-loop; other site 589865002729 H-loop/switch region; other site 589865002730 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 589865002731 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 589865002732 putative dimer interface [polypeptide binding]; other site 589865002733 active site pocket [active] 589865002734 putative cataytic base [active] 589865002735 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 589865002736 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 589865002737 FeS/SAM binding site; other site 589865002738 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 589865002739 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 589865002740 FeS/SAM binding site; other site 589865002741 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 589865002742 homodimer interface [polypeptide binding]; other site 589865002743 substrate-cofactor binding pocket; other site 589865002744 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865002745 catalytic residue [active] 589865002746 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 589865002747 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 589865002748 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 589865002749 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 589865002750 DHH family; Region: DHH; pfam01368 589865002751 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 589865002752 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 589865002753 tetramer interface [polypeptide binding]; other site 589865002754 active site 589865002755 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 589865002756 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 589865002757 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 589865002758 FeS/SAM binding site; other site 589865002759 TRAM domain; Region: TRAM; pfam01938 589865002760 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 589865002761 active site 589865002762 hypothetical protein; Provisional; Region: PRK06361 589865002763 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 589865002764 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 589865002765 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 589865002766 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 589865002767 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 589865002768 active site 589865002769 catalytic residues [active] 589865002770 metal binding site [ion binding]; metal-binding site 589865002771 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 589865002772 aspartate kinase; Reviewed; Region: PRK06635 589865002773 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 589865002774 putative nucleotide binding site [chemical binding]; other site 589865002775 putative catalytic residues [active] 589865002776 putative Mg ion binding site [ion binding]; other site 589865002777 putative aspartate binding site [chemical binding]; other site 589865002778 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 589865002779 putative allosteric regulatory site; other site 589865002780 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 589865002781 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 589865002782 Peptidase family M23; Region: Peptidase_M23; pfam01551 589865002783 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 589865002784 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 589865002785 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 589865002786 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 589865002787 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 589865002788 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 589865002789 Na2 binding site [ion binding]; other site 589865002790 putative substrate binding site 1 [chemical binding]; other site 589865002791 Na binding site 1 [ion binding]; other site 589865002792 putative substrate binding site 2 [chemical binding]; other site 589865002793 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 589865002794 PilZ domain; Region: PilZ; pfam07238 589865002795 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 589865002796 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 589865002797 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002798 putative active site [active] 589865002799 heme pocket [chemical binding]; other site 589865002800 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 589865002801 dimer interface [polypeptide binding]; other site 589865002802 phosphorylation site [posttranslational modification] 589865002803 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865002804 ATP binding site [chemical binding]; other site 589865002805 Mg2+ binding site [ion binding]; other site 589865002806 G-X-G motif; other site 589865002807 TPR repeat; Region: TPR_11; pfam13414 589865002808 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 589865002809 binding surface 589865002810 TPR motif; other site 589865002811 TPR repeat; Region: TPR_11; pfam13414 589865002812 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 589865002813 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 589865002814 dimerization interface [polypeptide binding]; other site 589865002815 active site 589865002816 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 589865002817 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 589865002818 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 589865002819 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 589865002820 4Fe-4S binding domain; Region: Fer4; pfam00037 589865002821 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 589865002822 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 589865002823 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 589865002824 catalytic loop [active] 589865002825 iron binding site [ion binding]; other site 589865002826 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 589865002827 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 589865002828 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 589865002829 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 589865002830 [4Fe-4S] binding site [ion binding]; other site 589865002831 molybdopterin cofactor binding site; other site 589865002832 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 589865002833 molybdopterin cofactor binding site; other site 589865002834 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 589865002835 Putative Fe-S cluster; Region: FeS; pfam04060 589865002836 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 589865002837 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 589865002838 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 589865002839 metal cluster binding site [ion binding]; other site 589865002840 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 589865002841 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 589865002842 FAD binding site [chemical binding]; other site 589865002843 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 589865002844 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 589865002845 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 589865002846 ACS interaction site; other site 589865002847 CODH interaction site; other site 589865002848 metal cluster binding site [ion binding]; other site 589865002849 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 589865002850 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 589865002851 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 589865002852 homodimer interface [polypeptide binding]; other site 589865002853 NADP binding site [chemical binding]; other site 589865002854 substrate binding site [chemical binding]; other site 589865002855 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 589865002856 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 589865002857 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 589865002858 Walker A motif; other site 589865002859 ATP binding site [chemical binding]; other site 589865002860 Walker B motif; other site 589865002861 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 589865002862 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 589865002863 ligand binding site [chemical binding]; other site 589865002864 flexible hinge region; other site 589865002865 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 589865002866 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 589865002867 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 589865002868 P-loop; other site 589865002869 Magnesium ion binding site [ion binding]; other site 589865002870 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 589865002871 Magnesium ion binding site [ion binding]; other site 589865002872 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 589865002873 PilZ domain; Region: PilZ; pfam07238 589865002874 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 589865002875 Response regulator receiver domain; Region: Response_reg; pfam00072 589865002876 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002877 active site 589865002878 phosphorylation site [posttranslational modification] 589865002879 intermolecular recognition site; other site 589865002880 dimerization interface [polypeptide binding]; other site 589865002881 PAS fold; Region: PAS_4; pfam08448 589865002882 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865002883 putative active site [active] 589865002884 heme pocket [chemical binding]; other site 589865002885 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]; Region: MIS1; COG2759 589865002886 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 589865002887 Potassium binding sites [ion binding]; other site 589865002888 Cesium cation binding sites [ion binding]; other site 589865002889 Thymidylate synthase complementing protein; Region: Thy1; cl03630 589865002890 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 589865002891 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 589865002892 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 589865002893 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 589865002894 catalytic residue [active] 589865002895 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 589865002896 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 589865002897 trimerization site [polypeptide binding]; other site 589865002898 active site 589865002899 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 589865002900 NifU-like domain; Region: NifU; pfam01106 589865002901 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 589865002902 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 589865002903 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 589865002904 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 589865002905 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 589865002906 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 589865002907 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 589865002908 4Fe-4S binding domain; Region: Fer4_5; pfam12801 589865002909 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 589865002910 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 589865002911 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 589865002912 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 589865002913 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 589865002914 N-terminal plug; other site 589865002915 ligand-binding site [chemical binding]; other site 589865002916 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 589865002917 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 589865002918 GIY-YIG motif/motif A; other site 589865002919 active site 589865002920 catalytic site [active] 589865002921 putative DNA binding site [nucleotide binding]; other site 589865002922 metal binding site [ion binding]; metal-binding site 589865002923 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 589865002924 Helix-hairpin-helix motif; Region: HHH; pfam00633 589865002925 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 589865002926 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 589865002927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865002928 Response regulator receiver domain; Region: Response_reg; pfam00072 589865002929 active site 589865002930 phosphorylation site [posttranslational modification] 589865002931 intermolecular recognition site; other site 589865002932 dimerization interface [polypeptide binding]; other site 589865002933 PilZ domain; Region: PilZ; pfam07238 589865002934 GTP-binding protein Der; Reviewed; Region: PRK00093 589865002935 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 589865002936 G1 box; other site 589865002937 GTP/Mg2+ binding site [chemical binding]; other site 589865002938 Switch I region; other site 589865002939 G2 box; other site 589865002940 Switch II region; other site 589865002941 G3 box; other site 589865002942 G4 box; other site 589865002943 G5 box; other site 589865002944 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 589865002945 G1 box; other site 589865002946 GTP/Mg2+ binding site [chemical binding]; other site 589865002947 Switch I region; other site 589865002948 G2 box; other site 589865002949 G3 box; other site 589865002950 Switch II region; other site 589865002951 G4 box; other site 589865002952 G5 box; other site 589865002953 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 589865002954 Phosphotransferase enzyme family; Region: APH; pfam01636 589865002955 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 589865002956 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 589865002957 Substrate binding site; other site 589865002958 metal-binding site 589865002959 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 589865002960 putative trimer interface [polypeptide binding]; other site 589865002961 putative CoA binding site [chemical binding]; other site 589865002962 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 589865002963 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 589865002964 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 589865002965 active site 589865002966 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 589865002967 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 589865002968 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 589865002969 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 589865002970 trimer interface [polypeptide binding]; other site 589865002971 active site 589865002972 UDP-GlcNAc binding site [chemical binding]; other site 589865002973 lipid binding site [chemical binding]; lipid-binding site 589865002974 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 589865002975 IHF dimer interface [polypeptide binding]; other site 589865002976 IHF - DNA interface [nucleotide binding]; other site 589865002977 enolase; Provisional; Region: eno; PRK00077 589865002978 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 589865002979 dimer interface [polypeptide binding]; other site 589865002980 metal binding site [ion binding]; metal-binding site 589865002981 substrate binding pocket [chemical binding]; other site 589865002982 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 589865002983 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 589865002984 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 589865002985 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 589865002986 N-acetyl-D-glucosamine binding site [chemical binding]; other site 589865002987 catalytic residue [active] 589865002988 Predicted permease; Region: DUF318; cl17795 589865002989 Predicted permease; Region: DUF318; cl17795 589865002990 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 589865002991 CPxP motif; other site 589865002992 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 589865002993 MPN+ (JAMM) motif; other site 589865002994 Zinc-binding site [ion binding]; other site 589865002995 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 589865002996 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 589865002997 ATP binding site [chemical binding]; other site 589865002998 substrate interface [chemical binding]; other site 589865002999 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 589865003000 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 589865003001 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 589865003002 catalytic residue [active] 589865003003 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 589865003004 thiS-thiF/thiG interaction site; other site 589865003005 Uncharacterized conserved protein [Function unknown]; Region: COG3287 589865003006 FIST N domain; Region: FIST; pfam08495 589865003007 FIST C domain; Region: FIST_C; pfam10442 589865003008 GAF domain; Region: GAF; pfam01590 589865003009 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 589865003010 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 589865003011 dimer interface [polypeptide binding]; other site 589865003012 phosphorylation site [posttranslational modification] 589865003013 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865003014 ATP binding site [chemical binding]; other site 589865003015 Mg2+ binding site [ion binding]; other site 589865003016 G-X-G motif; other site 589865003017 Response regulator receiver domain; Region: Response_reg; pfam00072 589865003018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865003019 active site 589865003020 phosphorylation site [posttranslational modification] 589865003021 intermolecular recognition site; other site 589865003022 dimerization interface [polypeptide binding]; other site 589865003023 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865003024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865003025 active site 589865003026 phosphorylation site [posttranslational modification] 589865003027 intermolecular recognition site; other site 589865003028 dimerization interface [polypeptide binding]; other site 589865003029 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 589865003030 Walker A motif; other site 589865003031 ATP binding site [chemical binding]; other site 589865003032 Walker B motif; other site 589865003033 arginine finger; other site 589865003034 Nitrate and nitrite sensing; Region: NIT; pfam08376 589865003035 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865003036 dimer interface [polypeptide binding]; other site 589865003037 putative CheW interface [polypeptide binding]; other site 589865003038 multifunctional aminopeptidase A; Provisional; Region: PRK00913 589865003039 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 589865003040 interface (dimer of trimers) [polypeptide binding]; other site 589865003041 Substrate-binding/catalytic site; other site 589865003042 Zn-binding sites [ion binding]; other site 589865003043 Domain of unknown function DUF21; Region: DUF21; pfam01595 589865003044 FOG: CBS domain [General function prediction only]; Region: COG0517 589865003045 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 589865003046 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 589865003047 4Fe-4S binding domain; Region: Fer4_5; pfam12801 589865003048 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 589865003049 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 589865003050 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 589865003051 protein binding site [polypeptide binding]; other site 589865003052 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 589865003053 MgtE intracellular N domain; Region: MgtE_N; pfam03448 589865003054 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 589865003055 Divalent cation transporter; Region: MgtE; pfam01769 589865003056 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 589865003057 active site 589865003058 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 589865003059 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 589865003060 homoserine dehydrogenase; Provisional; Region: PRK06349 589865003061 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 589865003062 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 589865003063 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 589865003064 TolQ protein; Region: tolQ; TIGR02796 589865003065 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 589865003066 TolR protein; Region: tolR; TIGR02801 589865003067 TonB C terminal; Region: TonB_2; pfam13103 589865003068 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 589865003069 TolB amino-terminal domain; Region: TolB_N; pfam04052 589865003070 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 589865003071 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 589865003072 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 589865003073 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 589865003074 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 589865003075 binding surface 589865003076 Tetratricopeptide repeat; Region: TPR_16; pfam13432 589865003077 TPR motif; other site 589865003078 phosphoenolpyruvate synthase; Validated; Region: PRK06464 589865003079 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 589865003080 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 589865003081 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 589865003082 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 589865003083 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 589865003084 active site 589865003085 substrate binding site [chemical binding]; other site 589865003086 metal binding site [ion binding]; metal-binding site 589865003087 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 589865003088 binding surface 589865003089 TPR motif; other site 589865003090 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 589865003091 TPR repeat; Region: TPR_11; pfam13414 589865003092 binding surface 589865003093 TPR motif; other site 589865003094 TPR repeat; Region: TPR_11; pfam13414 589865003095 TPR repeat; Region: TPR_11; pfam13414 589865003096 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 589865003097 binding surface 589865003098 TPR motif; other site 589865003099 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 589865003100 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 589865003101 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 589865003102 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 589865003103 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 589865003104 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 589865003105 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 589865003106 putative substrate-binding site; other site 589865003107 nickel binding site [ion binding]; other site 589865003108 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 589865003109 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 589865003110 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 589865003111 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 589865003112 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 589865003113 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 589865003114 catalytic site [active] 589865003115 subunit interface [polypeptide binding]; other site 589865003116 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 589865003117 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 589865003118 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 589865003119 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 589865003120 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 589865003121 ATP-grasp domain; Region: ATP-grasp_4; cl17255 589865003122 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 589865003123 IMP binding site; other site 589865003124 dimer interface [polypeptide binding]; other site 589865003125 interdomain contacts; other site 589865003126 partial ornithine binding site; other site 589865003127 FtsH Extracellular; Region: FtsH_ext; pfam06480 589865003128 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 589865003129 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 589865003130 Walker A motif; other site 589865003131 ATP binding site [chemical binding]; other site 589865003132 Walker B motif; other site 589865003133 arginine finger; other site 589865003134 Peptidase family M41; Region: Peptidase_M41; pfam01434 589865003135 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 589865003136 dihydropteroate synthase; Region: DHPS; TIGR01496 589865003137 substrate binding pocket [chemical binding]; other site 589865003138 dimer interface [polypeptide binding]; other site 589865003139 inhibitor binding site; inhibition site 589865003140 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 589865003141 adenylate cyclase; Provisional; Region: cyaA; PRK09450 589865003142 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 589865003143 serine O-acetyltransferase; Region: cysE; TIGR01172 589865003144 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 589865003145 trimer interface [polypeptide binding]; other site 589865003146 active site 589865003147 substrate binding site [chemical binding]; other site 589865003148 CoA binding site [chemical binding]; other site 589865003149 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 589865003150 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 589865003151 dimer interface [polypeptide binding]; other site 589865003152 PYR/PP interface [polypeptide binding]; other site 589865003153 TPP binding site [chemical binding]; other site 589865003154 substrate binding site [chemical binding]; other site 589865003155 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 589865003156 Domain of unknown function; Region: EKR; pfam10371 589865003157 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 589865003158 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 589865003159 TPP-binding site [chemical binding]; other site 589865003160 dimer interface [polypeptide binding]; other site 589865003161 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 589865003162 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 589865003163 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 589865003164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865003165 catalytic residue [active] 589865003166 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 589865003167 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865003168 dimer interface [polypeptide binding]; other site 589865003169 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 589865003170 putative CheW interface [polypeptide binding]; other site 589865003171 Peptidase family M48; Region: Peptidase_M48; pfam01435 589865003172 TPR repeat; Region: TPR_11; pfam13414 589865003173 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 589865003174 binding surface 589865003175 TPR motif; other site 589865003176 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 589865003177 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 589865003178 active site 589865003179 HIGH motif; other site 589865003180 dimer interface [polypeptide binding]; other site 589865003181 KMSKS motif; other site 589865003182 phosphodiesterase; Provisional; Region: PRK12704 589865003183 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865003184 Zn2+ binding site [ion binding]; other site 589865003185 Mg2+ binding site [ion binding]; other site 589865003186 Cell division protein ZapA; Region: ZapA; pfam05164 589865003187 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 589865003188 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 589865003189 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 589865003190 Substrate binding site; other site 589865003191 Mg++ binding site; other site 589865003192 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 589865003193 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 589865003194 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 589865003195 Walker A/P-loop; other site 589865003196 ATP binding site [chemical binding]; other site 589865003197 Q-loop/lid; other site 589865003198 ABC transporter signature motif; other site 589865003199 Walker B; other site 589865003200 D-loop; other site 589865003201 H-loop/switch region; other site 589865003202 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 589865003203 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 589865003204 NosL; Region: NosL; cl01769 589865003205 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 589865003206 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 589865003207 catalytic residues [active] 589865003208 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865003209 dimer interface [polypeptide binding]; other site 589865003210 putative CheW interface [polypeptide binding]; other site 589865003211 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 589865003212 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 589865003213 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 589865003214 GAF domain; Region: GAF_3; pfam13492 589865003215 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865003216 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865003217 metal binding site [ion binding]; metal-binding site 589865003218 active site 589865003219 I-site; other site 589865003220 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 589865003221 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865003222 putative active site [active] 589865003223 heme pocket [chemical binding]; other site 589865003224 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 589865003225 dimer interface [polypeptide binding]; other site 589865003226 phosphorylation site [posttranslational modification] 589865003227 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865003228 ATP binding site [chemical binding]; other site 589865003229 Mg2+ binding site [ion binding]; other site 589865003230 G-X-G motif; other site 589865003231 Response regulator receiver domain; Region: Response_reg; pfam00072 589865003232 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865003233 active site 589865003234 phosphorylation site [posttranslational modification] 589865003235 intermolecular recognition site; other site 589865003236 dimerization interface [polypeptide binding]; other site 589865003237 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 589865003238 sequence-specific DNA binding site [nucleotide binding]; other site 589865003239 salt bridge; other site 589865003240 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 589865003241 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 589865003242 dimerization interface [polypeptide binding]; other site 589865003243 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 589865003244 dimer interface [polypeptide binding]; other site 589865003245 phosphorylation site [posttranslational modification] 589865003246 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865003247 ATP binding site [chemical binding]; other site 589865003248 Mg2+ binding site [ion binding]; other site 589865003249 G-X-G motif; other site 589865003250 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865003251 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865003252 active site 589865003253 phosphorylation site [posttranslational modification] 589865003254 intermolecular recognition site; other site 589865003255 dimerization interface [polypeptide binding]; other site 589865003256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 589865003257 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 589865003258 NAD(P) binding site [chemical binding]; other site 589865003259 active site 589865003260 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 589865003261 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 589865003262 tartrate dehydrogenase; Region: TTC; TIGR02089 589865003263 Uncharacterized conserved protein [Function unknown]; Region: COG4198 589865003264 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 589865003265 Uncharacterized conserved protein [Function unknown]; Region: COG4198 589865003266 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 589865003267 active site 589865003268 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 589865003269 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 589865003270 FeS/SAM binding site; other site 589865003271 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 589865003272 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 589865003273 putative substrate binding pocket [chemical binding]; other site 589865003274 dimer interface [polypeptide binding]; other site 589865003275 phosphate binding site [ion binding]; other site 589865003276 malate dehydrogenase; Reviewed; Region: PRK06223 589865003277 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 589865003278 NAD(P) binding site [chemical binding]; other site 589865003279 dimer interface [polypeptide binding]; other site 589865003280 tetramer (dimer of dimers) interface [polypeptide binding]; other site 589865003281 substrate binding site [chemical binding]; other site 589865003282 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 589865003283 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 589865003284 Ligand binding site; other site 589865003285 oligomer interface; other site 589865003286 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 589865003287 S-adenosylmethionine binding site [chemical binding]; other site 589865003288 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 589865003289 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 589865003290 inhibitor-cofactor binding pocket; inhibition site 589865003291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865003292 catalytic residue [active] 589865003293 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 589865003294 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 589865003295 active site 589865003296 metal binding site [ion binding]; metal-binding site 589865003297 Protein of unknown function (DUF615); Region: DUF615; pfam04751 589865003298 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 589865003299 trimer interface [polypeptide binding]; other site 589865003300 putative Zn binding site [ion binding]; other site 589865003301 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 589865003302 pyruvate carboxylase subunit B; Validated; Region: PRK09282 589865003303 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 589865003304 active site 589865003305 catalytic residues [active] 589865003306 metal binding site [ion binding]; metal-binding site 589865003307 homodimer binding site [polypeptide binding]; other site 589865003308 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 589865003309 carboxyltransferase (CT) interaction site; other site 589865003310 biotinylation site [posttranslational modification]; other site 589865003311 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 589865003312 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 589865003313 ATP-grasp domain; Region: ATP-grasp_4; cl17255 589865003314 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 589865003315 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 589865003316 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 589865003317 dimerization interface [polypeptide binding]; other site 589865003318 active site 589865003319 metal binding site [ion binding]; metal-binding site 589865003320 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 589865003321 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 589865003322 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 589865003323 ligand binding site [chemical binding]; other site 589865003324 flexible hinge region; other site 589865003325 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 589865003326 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 589865003327 metal binding triad; other site 589865003328 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 589865003329 active site 589865003330 catalytic site [active] 589865003331 substrate binding site [chemical binding]; other site 589865003332 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 589865003333 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 589865003334 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 589865003335 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 589865003336 Na binding site [ion binding]; other site 589865003337 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865003338 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865003339 active site 589865003340 phosphorylation site [posttranslational modification] 589865003341 intermolecular recognition site; other site 589865003342 dimerization interface [polypeptide binding]; other site 589865003343 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 589865003344 Walker A motif; other site 589865003345 ATP binding site [chemical binding]; other site 589865003346 Walker B motif; other site 589865003347 arginine finger; other site 589865003348 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865003349 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 589865003350 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 589865003351 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865003352 putative active site [active] 589865003353 heme pocket [chemical binding]; other site 589865003354 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 589865003355 phosphorylation site [posttranslational modification] 589865003356 dimer interface [polypeptide binding]; other site 589865003357 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865003358 ATP binding site [chemical binding]; other site 589865003359 Mg2+ binding site [ion binding]; other site 589865003360 G-X-G motif; other site 589865003361 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 589865003362 putative active site [active] 589865003363 putative metal binding site [ion binding]; other site 589865003364 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 589865003365 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 589865003366 substrate binding site [chemical binding]; other site 589865003367 DNA topoisomerase IV subunit A; Provisional; Region: PRK09631 589865003368 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; cl00148 589865003369 CAP-like domain; other site 589865003370 active site 589865003371 primary dimer interface [polypeptide binding]; other site 589865003372 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 589865003373 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 589865003374 ATP binding site [chemical binding]; other site 589865003375 Mg2+ binding site [ion binding]; other site 589865003376 G-X-G motif; other site 589865003377 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 589865003378 anchoring element; other site 589865003379 dimer interface [polypeptide binding]; other site 589865003380 ATP binding site [chemical binding]; other site 589865003381 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 589865003382 active site 589865003383 putative metal-binding site [ion binding]; other site 589865003384 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 589865003385 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 589865003386 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 589865003387 active site 589865003388 Zn binding site [ion binding]; other site 589865003389 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 589865003390 rRNA interaction site [nucleotide binding]; other site 589865003391 S8 interaction site; other site 589865003392 putative laminin-1 binding site; other site 589865003393 elongation factor Ts; Reviewed; Region: tsf; PRK12332 589865003394 UBA/TS-N domain; Region: UBA; pfam00627 589865003395 Elongation factor TS; Region: EF_TS; pfam00889 589865003396 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 589865003397 putative nucleotide binding site [chemical binding]; other site 589865003398 uridine monophosphate binding site [chemical binding]; other site 589865003399 homohexameric interface [polypeptide binding]; other site 589865003400 ribosome recycling factor; Reviewed; Region: frr; PRK00083 589865003401 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 589865003402 hinge region; other site 589865003403 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 589865003404 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 589865003405 catalytic residue [active] 589865003406 putative FPP diphosphate binding site; other site 589865003407 putative FPP binding hydrophobic cleft; other site 589865003408 dimer interface [polypeptide binding]; other site 589865003409 putative IPP diphosphate binding site; other site 589865003410 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 589865003411 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 589865003412 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 589865003413 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 589865003414 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 589865003415 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 589865003416 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 589865003417 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 589865003418 active site 589865003419 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 589865003420 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 589865003421 putative substrate binding region [chemical binding]; other site 589865003422 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 589865003423 Glycoprotease family; Region: Peptidase_M22; pfam00814 589865003424 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 589865003425 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 589865003426 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 589865003427 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 589865003428 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 589865003429 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 589865003430 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 589865003431 P-loop; other site 589865003432 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 589865003433 Glucokinase; Region: Glucokinase; cl17310 589865003434 glucokinase, proteobacterial type; Region: glk; TIGR00749 589865003435 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 589865003436 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 589865003437 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 589865003438 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 589865003439 putative active site [active] 589865003440 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 589865003441 active site 589865003442 Ap6A binding site [chemical binding]; other site 589865003443 nudix motif; other site 589865003444 metal binding site [ion binding]; metal-binding site 589865003445 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 589865003446 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 589865003447 ATP binding site [chemical binding]; other site 589865003448 putative Mg++ binding site [ion binding]; other site 589865003449 Helicase associated domain (HA2); Region: HA2; pfam04408 589865003450 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 589865003451 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 589865003452 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 589865003453 DEAD-like helicases superfamily; Region: DEXDc; smart00487 589865003454 ATP binding site [chemical binding]; other site 589865003455 Mg++ binding site [ion binding]; other site 589865003456 motif III; other site 589865003457 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 589865003458 nucleotide binding region [chemical binding]; other site 589865003459 ATP-binding site [chemical binding]; other site 589865003460 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 589865003461 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 589865003462 DnaA box-binding interface [nucleotide binding]; other site 589865003463 PAS domain; Region: PAS; smart00091 589865003464 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 589865003465 putative active site [active] 589865003466 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 589865003467 dimer interface [polypeptide binding]; other site 589865003468 phosphorylation site [posttranslational modification] 589865003469 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865003470 ATP binding site [chemical binding]; other site 589865003471 Mg2+ binding site [ion binding]; other site 589865003472 G-X-G motif; other site 589865003473 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865003474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865003475 active site 589865003476 phosphorylation site [posttranslational modification] 589865003477 intermolecular recognition site; other site 589865003478 dimerization interface [polypeptide binding]; other site 589865003479 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 589865003480 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 589865003481 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 589865003482 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 589865003483 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 589865003484 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 589865003485 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 589865003486 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 589865003487 non-specific DNA binding site [nucleotide binding]; other site 589865003488 salt bridge; other site 589865003489 sequence-specific DNA binding site [nucleotide binding]; other site 589865003490 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 589865003491 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 589865003492 Walker A motif; other site 589865003493 ATP binding site [chemical binding]; other site 589865003494 Walker B motif; other site 589865003495 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 589865003496 AAA domain; Region: AAA_14; pfam13173 589865003497 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 589865003498 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 589865003499 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 589865003500 HsdM N-terminal domain; Region: HsdM_N; pfam12161 589865003501 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 589865003502 Methyltransferase domain; Region: Methyltransf_26; pfam13659 589865003503 Transposase, Mutator family; Region: Transposase_mut; pfam00872 589865003504 MULE transposase domain; Region: MULE; pfam10551 589865003505 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 589865003506 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 589865003507 putative active site [active] 589865003508 putative NTP binding site [chemical binding]; other site 589865003509 putative nucleic acid binding site [nucleotide binding]; other site 589865003510 Predicted transcriptional regulator [Transcription]; Region: COG2944 589865003511 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 589865003512 non-specific DNA binding site [nucleotide binding]; other site 589865003513 salt bridge; other site 589865003514 sequence-specific DNA binding site [nucleotide binding]; other site 589865003515 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 589865003516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 589865003517 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 589865003518 Rubredoxin; Region: Rubredoxin; pfam00301 589865003519 iron binding site [ion binding]; other site 589865003520 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 589865003521 iron binding site [ion binding]; other site 589865003522 hypothetical protein; Provisional; Region: PRK10279 589865003523 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 589865003524 nucleophile elbow; other site 589865003525 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 589865003526 MltA-interacting protein MipA; Region: MipA; cl01504 589865003527 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 589865003528 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 589865003529 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 589865003530 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 589865003531 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 589865003532 Uncharacterized conserved protein [Function unknown]; Region: COG0432 589865003533 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK07418 589865003534 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 589865003535 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 589865003536 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 589865003537 Walker A motif; other site 589865003538 ATP binding site [chemical binding]; other site 589865003539 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 589865003540 Walker B motif; other site 589865003541 arginine finger; other site 589865003542 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 589865003543 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 589865003544 active site 589865003545 HslU subunit interaction site [polypeptide binding]; other site 589865003546 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 589865003547 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 589865003548 active site 589865003549 DNA binding site [nucleotide binding] 589865003550 Int/Topo IB signature motif; other site 589865003551 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14066 589865003552 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 589865003553 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 589865003554 substrate binding pocket [chemical binding]; other site 589865003555 chain length determination region; other site 589865003556 substrate-Mg2+ binding site; other site 589865003557 catalytic residues [active] 589865003558 aspartate-rich region 1; other site 589865003559 active site lid residues [active] 589865003560 aspartate-rich region 2; other site 589865003561 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 589865003562 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 589865003563 TPP-binding site; other site 589865003564 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 589865003565 PYR/PP interface [polypeptide binding]; other site 589865003566 dimer interface [polypeptide binding]; other site 589865003567 TPP binding site [chemical binding]; other site 589865003568 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 589865003569 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 589865003570 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 589865003571 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 589865003572 ligand binding site [chemical binding]; other site 589865003573 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 589865003574 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 589865003575 Response regulator receiver domain; Region: Response_reg; pfam00072 589865003576 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865003577 active site 589865003578 phosphorylation site [posttranslational modification] 589865003579 intermolecular recognition site; other site 589865003580 dimerization interface [polypeptide binding]; other site 589865003581 PEP synthetase regulatory protein; Provisional; Region: PRK05339 589865003582 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 589865003583 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 589865003584 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865003585 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865003586 metal binding site [ion binding]; metal-binding site 589865003587 active site 589865003588 I-site; other site 589865003589 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 589865003590 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865003591 active site 589865003592 phosphorylation site [posttranslational modification] 589865003593 intermolecular recognition site; other site 589865003594 dimerization interface [polypeptide binding]; other site 589865003595 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 589865003596 DNA binding site [nucleotide binding] 589865003597 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 589865003598 anti sigma factor interaction site; other site 589865003599 regulatory phosphorylation site [posttranslational modification]; other site 589865003600 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 589865003601 HAMP domain; Region: HAMP; pfam00672 589865003602 Histidine kinase; Region: HisKA_3; pfam07730 589865003603 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865003604 ATP binding site [chemical binding]; other site 589865003605 Mg2+ binding site [ion binding]; other site 589865003606 G-X-G motif; other site 589865003607 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 589865003608 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865003609 active site 589865003610 phosphorylation site [posttranslational modification] 589865003611 intermolecular recognition site; other site 589865003612 dimerization interface [polypeptide binding]; other site 589865003613 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 589865003614 DNA binding residues [nucleotide binding] 589865003615 dimerization interface [polypeptide binding]; other site 589865003616 Uncharacterized conserved protein [Function unknown]; Region: COG2006 589865003617 Domain of unknown function (DUF362); Region: DUF362; pfam04015 589865003618 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865003619 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865003620 metal binding site [ion binding]; metal-binding site 589865003621 active site 589865003622 I-site; other site 589865003623 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 589865003624 hypothetical protein; Reviewed; Region: PRK09588 589865003625 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 589865003626 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865003627 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865003628 active site 589865003629 phosphorylation site [posttranslational modification] 589865003630 intermolecular recognition site; other site 589865003631 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865003632 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865003633 metal binding site [ion binding]; metal-binding site 589865003634 active site 589865003635 I-site; other site 589865003636 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 589865003637 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 589865003638 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 589865003639 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 589865003640 ABC transporter; Region: ABC_tran_2; pfam12848 589865003641 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 589865003642 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 589865003643 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865003644 Zn2+ binding site [ion binding]; other site 589865003645 Mg2+ binding site [ion binding]; other site 589865003646 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 589865003647 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 589865003648 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 589865003649 HIGH motif; other site 589865003650 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 589865003651 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 589865003652 active site 589865003653 KMSKS motif; other site 589865003654 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 589865003655 tRNA binding surface [nucleotide binding]; other site 589865003656 anticodon binding site; other site 589865003657 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 589865003658 Fungal protease inhibitor; Region: amfpi-1; pfam12190 589865003659 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 589865003660 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 589865003661 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 589865003662 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 589865003663 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 589865003664 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 589865003665 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 589865003666 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 589865003667 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 589865003668 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 589865003669 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 589865003670 Transglycosylase; Region: Transgly; pfam00912 589865003671 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 589865003672 SEC-C motif; Region: SEC-C; pfam02810 589865003673 BCCT family transporter; Region: BCCT; cl00569 589865003674 hypothetical protein; Validated; Region: PRK00228 589865003675 glycogen branching enzyme; Provisional; Region: PRK05402 589865003676 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 589865003677 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 589865003678 active site 589865003679 catalytic site [active] 589865003680 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 589865003681 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 589865003682 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 589865003683 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 589865003684 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 589865003685 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 589865003686 P loop; other site 589865003687 GTP binding site [chemical binding]; other site 589865003688 tellurium resistance terB-like protein; Region: terB_like; cd07177 589865003689 metal binding site [ion binding]; metal-binding site 589865003690 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 589865003691 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 589865003692 HSP70 interaction site [polypeptide binding]; other site 589865003693 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 589865003694 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 589865003695 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 589865003696 4-alpha-glucanotransferase; Provisional; Region: PRK14508 589865003697 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 589865003698 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 589865003699 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 589865003700 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 589865003701 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 589865003702 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 589865003703 DNA binding residues [nucleotide binding] 589865003704 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 589865003705 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 589865003706 Competence protein; Region: Competence; pfam03772 589865003707 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 589865003708 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 589865003709 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 589865003710 Walker A motif; other site 589865003711 ATP binding site [chemical binding]; other site 589865003712 Walker B motif; other site 589865003713 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 589865003714 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 589865003715 active site 589865003716 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 589865003717 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865003718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865003719 active site 589865003720 phosphorylation site [posttranslational modification] 589865003721 intermolecular recognition site; other site 589865003722 dimerization interface [polypeptide binding]; other site 589865003723 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 589865003724 Walker A motif; other site 589865003725 ATP binding site [chemical binding]; other site 589865003726 Walker B motif; other site 589865003727 arginine finger; other site 589865003728 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865003729 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 589865003730 YtxH-like protein; Region: YtxH; pfam12732 589865003731 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 589865003732 ATP-NAD kinase; Region: NAD_kinase; pfam01513 589865003733 pyrroline-5-carboxylate reductase; Region: PLN02688 589865003734 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 589865003735 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 589865003736 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 589865003737 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 589865003738 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 589865003739 RNA methyltransferase, RsmE family; Region: TIGR00046 589865003740 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 589865003741 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 589865003742 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 589865003743 MPT binding site; other site 589865003744 trimer interface [polypeptide binding]; other site 589865003745 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 589865003746 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 589865003747 dimerization interface [polypeptide binding]; other site 589865003748 putative ATP binding site [chemical binding]; other site 589865003749 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 589865003750 Mn2+-dependent serine/threonine protein kinase [Signal transduction mechanisms]; Region: COG3642 589865003751 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 589865003752 ligand-binding site [chemical binding]; other site 589865003753 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 589865003754 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 589865003755 putative ADP-binding pocket [chemical binding]; other site 589865003756 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 589865003757 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 589865003758 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 589865003759 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 589865003760 AAA domain; Region: AAA_30; pfam13604 589865003761 Phosphotransferase enzyme family; Region: APH; pfam01636 589865003762 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 589865003763 active site 589865003764 ATP binding site [chemical binding]; other site 589865003765 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 589865003766 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 589865003767 putative ADP-binding pocket [chemical binding]; other site 589865003768 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 589865003769 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 589865003770 putative ADP-binding pocket [chemical binding]; other site 589865003771 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 589865003772 O-Antigen ligase; Region: Wzy_C; pfam04932 589865003773 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 589865003774 sulfotransferase; Region: PLN02164 589865003775 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 589865003776 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 589865003777 putative ADP-binding pocket [chemical binding]; other site 589865003778 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 589865003779 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 589865003780 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 589865003781 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 589865003782 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 589865003783 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 589865003784 putative active site [active] 589865003785 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 589865003786 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 589865003787 active site 589865003788 motif I; other site 589865003789 motif II; other site 589865003790 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 589865003791 active site 589865003792 dimer interface [polypeptide binding]; other site 589865003793 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 589865003794 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 589865003795 putative ribose interaction site [chemical binding]; other site 589865003796 putative ADP binding site [chemical binding]; other site 589865003797 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 589865003798 active site 589865003799 nucleotide binding site [chemical binding]; other site 589865003800 HIGH motif; other site 589865003801 KMSKS motif; other site 589865003802 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 589865003803 Beta-lactamase; Region: Beta-lactamase; pfam00144 589865003804 ketol-acid reductoisomerase; Region: ilvC; TIGR00465 589865003805 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 589865003806 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 589865003807 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 589865003808 Response regulator receiver domain; Region: Response_reg; pfam00072 589865003809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865003810 active site 589865003811 phosphorylation site [posttranslational modification] 589865003812 intermolecular recognition site; other site 589865003813 dimerization interface [polypeptide binding]; other site 589865003814 Response regulator receiver domain; Region: Response_reg; pfam00072 589865003815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865003816 active site 589865003817 phosphorylation site [posttranslational modification] 589865003818 intermolecular recognition site; other site 589865003819 dimerization interface [polypeptide binding]; other site 589865003820 PAS domain; Region: PAS; smart00091 589865003821 PAS fold; Region: PAS; pfam00989 589865003822 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 589865003823 dimer interface [polypeptide binding]; other site 589865003824 phosphorylation site [posttranslational modification] 589865003825 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865003826 ATP binding site [chemical binding]; other site 589865003827 Mg2+ binding site [ion binding]; other site 589865003828 G-X-G motif; other site 589865003829 deoxyguanosinetriphosphate triphosphohydrolase, putative; Region: dGTP_triPase; TIGR01353 589865003830 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865003831 Zn2+ binding site [ion binding]; other site 589865003832 Mg2+ binding site [ion binding]; other site 589865003833 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 589865003834 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 589865003835 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 589865003836 active site 589865003837 Zn binding site [ion binding]; other site 589865003838 FOG: CBS domain [General function prediction only]; Region: COG0517 589865003839 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_assoc; cd04584 589865003840 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 589865003841 CoA binding domain; Region: CoA_binding_2; pfam13380 589865003842 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 589865003843 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 589865003844 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 589865003845 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 589865003846 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 589865003847 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 589865003848 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 589865003849 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 589865003850 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 589865003851 Coenzyme A binding pocket [chemical binding]; other site 589865003852 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 589865003853 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 589865003854 active site 589865003855 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 589865003856 active site 589865003857 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 589865003858 active site 2 [active] 589865003859 active site 1 [active] 589865003860 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 589865003861 Predicted exporter [General function prediction only]; Region: COG4258 589865003862 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 589865003863 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 589865003864 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 589865003865 active site 2 [active] 589865003866 active site 1 [active] 589865003867 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 589865003868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 589865003869 NAD(P) binding site [chemical binding]; other site 589865003870 active site 589865003871 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 589865003872 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 589865003873 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 589865003874 dimer interface [polypeptide binding]; other site 589865003875 active site 589865003876 Phosphopantetheine attachment site; Region: PP-binding; cl09936 589865003877 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 589865003878 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 589865003879 putative acyl-acceptor binding pocket; other site 589865003880 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 589865003881 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 589865003882 Ligand binding site; other site 589865003883 Putative Catalytic site; other site 589865003884 DXD motif; other site 589865003885 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 589865003886 lipid biosynthesis B12-binding/radical SAM protein; Region: rSAM_ladder_B12; TIGR04072 589865003887 B12 binding site [chemical binding]; other site 589865003888 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 589865003889 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 589865003890 FeS/SAM binding site; other site 589865003891 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 589865003892 B12 binding domain; Region: B12-binding; pfam02310 589865003893 B12 binding site [chemical binding]; other site 589865003894 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 589865003895 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 589865003896 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 589865003897 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 589865003898 FeS/SAM binding site; other site 589865003899 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 589865003900 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 589865003901 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 589865003902 acyl-activating enzyme (AAE) consensus motif; other site 589865003903 AMP binding site [chemical binding]; other site 589865003904 active site 589865003905 CoA binding site [chemical binding]; other site 589865003906 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 589865003907 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 589865003908 putative acyl-acceptor binding pocket; other site 589865003909 Phosphopantetheine attachment site; Region: PP-binding; cl09936 589865003910 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 589865003911 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 589865003912 dimer interface [polypeptide binding]; other site 589865003913 active site 589865003914 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 589865003915 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 589865003916 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 589865003917 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 589865003918 dimer interface [polypeptide binding]; other site 589865003919 active site 589865003920 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 589865003921 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 589865003922 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 589865003923 FeS/SAM binding site; other site 589865003924 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 589865003925 B12 binding site [chemical binding]; other site 589865003926 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 589865003927 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 589865003928 FeS/SAM binding site; other site 589865003929 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 589865003930 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 589865003931 dimer interface [polypeptide binding]; other site 589865003932 active site 589865003933 Phosphopantetheine attachment site; Region: PP-binding; cl09936 589865003934 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 589865003935 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 589865003936 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 589865003937 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 589865003938 Walker A/P-loop; other site 589865003939 ATP binding site [chemical binding]; other site 589865003940 Q-loop/lid; other site 589865003941 ABC transporter signature motif; other site 589865003942 Walker B; other site 589865003943 D-loop; other site 589865003944 H-loop/switch region; other site 589865003945 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 589865003946 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 589865003947 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 589865003948 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 589865003949 homodimer interface [polypeptide binding]; other site 589865003950 metal binding site [ion binding]; metal-binding site 589865003951 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 589865003952 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 589865003953 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 589865003954 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 589865003955 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 589865003956 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 589865003957 replicative DNA helicase; Region: DnaB; TIGR00665 589865003958 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 589865003959 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 589865003960 Walker A motif; other site 589865003961 ATP binding site [chemical binding]; other site 589865003962 Walker B motif; other site 589865003963 DNA binding loops [nucleotide binding] 589865003964 YfaZ precursor; Region: YfaZ; pfam07437 589865003965 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 589865003966 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 589865003967 active site 589865003968 (T/H)XGH motif; other site 589865003969 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 589865003970 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 589865003971 putative catalytic cysteine [active] 589865003972 gamma-glutamyl kinase; Provisional; Region: PRK05429 589865003973 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 589865003974 nucleotide binding site [chemical binding]; other site 589865003975 homotetrameric interface [polypeptide binding]; other site 589865003976 putative phosphate binding site [ion binding]; other site 589865003977 putative allosteric binding site; other site 589865003978 PUA domain; Region: PUA; pfam01472 589865003979 GTPase CgtA; Reviewed; Region: obgE; PRK12299 589865003980 GTP1/OBG; Region: GTP1_OBG; pfam01018 589865003981 Obg GTPase; Region: Obg; cd01898 589865003982 G1 box; other site 589865003983 GTP/Mg2+ binding site [chemical binding]; other site 589865003984 Switch I region; other site 589865003985 G2 box; other site 589865003986 G3 box; other site 589865003987 Switch II region; other site 589865003988 G4 box; other site 589865003989 G5 box; other site 589865003990 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 589865003991 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 589865003992 ribonuclease G; Provisional; Region: PRK11712 589865003993 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 589865003994 oligonucleotide binding site [chemical binding]; other site 589865003995 homodimer interface [polypeptide binding]; other site 589865003996 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 589865003997 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 589865003998 B12 binding site [chemical binding]; other site 589865003999 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 589865004000 FeS/SAM binding site; other site 589865004001 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 589865004002 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 589865004003 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 589865004004 TPR motif; other site 589865004005 binding surface 589865004006 Tetratricopeptide repeat; Region: TPR_16; pfam13432 589865004007 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 589865004008 binding surface 589865004009 TPR motif; other site 589865004010 TPR repeat; Region: TPR_11; pfam13414 589865004011 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 589865004012 binding surface 589865004013 TPR motif; other site 589865004014 TPR repeat; Region: TPR_11; pfam13414 589865004015 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 589865004016 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 589865004017 TMP-binding site; other site 589865004018 ATP-binding site [chemical binding]; other site 589865004019 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 589865004020 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 589865004021 hypothetical protein; Reviewed; Region: PRK12497 589865004022 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 589865004023 RNA/DNA hybrid binding site [nucleotide binding]; other site 589865004024 active site 589865004025 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 589865004026 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 589865004027 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 589865004028 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13829 589865004029 RimM N-terminal domain; Region: RimM; pfam01782 589865004030 PRC-barrel domain; Region: PRC; pfam05239 589865004031 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 589865004032 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 589865004033 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 589865004034 signal recognition particle protein; Provisional; Region: PRK10867 589865004035 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 589865004036 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 589865004037 P loop; other site 589865004038 GTP binding site [chemical binding]; other site 589865004039 Signal peptide binding domain; Region: SRP_SPB; pfam02978 589865004040 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 589865004041 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 589865004042 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 589865004043 lipoprotein signal peptidase; Provisional; Region: PRK14787 589865004044 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 589865004045 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 589865004046 active site 589865004047 HIGH motif; other site 589865004048 nucleotide binding site [chemical binding]; other site 589865004049 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 589865004050 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 589865004051 active site 589865004052 KMSKS motif; other site 589865004053 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 589865004054 tRNA binding surface [nucleotide binding]; other site 589865004055 anticodon binding site; other site 589865004056 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 589865004057 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 589865004058 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 589865004059 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 589865004060 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 589865004061 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 589865004062 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 589865004063 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12813 589865004064 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 589865004065 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 589865004066 MgtE intracellular N domain; Region: MgtE_N; cl15244 589865004067 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 589865004068 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 589865004069 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 589865004070 Walker A motif/ATP binding site; other site 589865004071 Walker B motif; other site 589865004072 Flagellar assembly protein FliH; Region: FliH; pfam02108 589865004073 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 589865004074 FliG C-terminal domain; Region: FliG_C; pfam01706 589865004075 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 589865004076 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 589865004077 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 589865004078 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 589865004079 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 589865004080 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 589865004081 Response regulator receiver domain; Region: Response_reg; pfam00072 589865004082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865004083 active site 589865004084 phosphorylation site [posttranslational modification] 589865004085 intermolecular recognition site; other site 589865004086 dimerization interface [polypeptide binding]; other site 589865004087 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 589865004088 Walker A motif; other site 589865004089 ATP binding site [chemical binding]; other site 589865004090 Walker B motif; other site 589865004091 arginine finger; other site 589865004092 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865004093 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 589865004094 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865004095 putative active site [active] 589865004096 heme pocket [chemical binding]; other site 589865004097 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 589865004098 dimer interface [polypeptide binding]; other site 589865004099 phosphorylation site [posttranslational modification] 589865004100 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865004101 ATP binding site [chemical binding]; other site 589865004102 Mg2+ binding site [ion binding]; other site 589865004103 G-X-G motif; other site 589865004104 Tetratricopeptide repeat; Region: TPR_18; pfam13512 589865004105 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 589865004106 binding surface 589865004107 TPR motif; other site 589865004108 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 589865004109 binding surface 589865004110 TPR motif; other site 589865004111 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 589865004112 binding surface 589865004113 TPR motif; other site 589865004114 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 589865004115 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 589865004116 Walker A motif; other site 589865004117 ATP binding site [chemical binding]; other site 589865004118 Walker B motif; other site 589865004119 arginine finger; other site 589865004120 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865004121 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 589865004122 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865004123 Walker A/P-loop; other site 589865004124 ATP binding site [chemical binding]; other site 589865004125 Q-loop/lid; other site 589865004126 ABC transporter signature motif; other site 589865004127 Walker B; other site 589865004128 D-loop; other site 589865004129 H-loop/switch region; other site 589865004130 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 589865004131 Peptidase family M23; Region: Peptidase_M23; pfam01551 589865004132 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 589865004133 C-terminal peptidase (prc); Region: prc; TIGR00225 589865004134 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 589865004135 protein binding site [polypeptide binding]; other site 589865004136 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 589865004137 Catalytic dyad [active] 589865004138 Fumarase C-terminus; Region: Fumerase_C; cl00795 589865004139 fumarate hydratase; Provisional; Region: PRK06246 589865004140 PilZ domain; Region: PilZ; pfam07238 589865004141 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 589865004142 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 589865004143 ligand binding site [chemical binding]; other site 589865004144 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 589865004145 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 589865004146 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 589865004147 active site 589865004148 oligomerization interface [polypeptide binding]; other site 589865004149 metal binding site [ion binding]; metal-binding site 589865004150 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 589865004151 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 589865004152 Walker A motif; other site 589865004153 ATP binding site [chemical binding]; other site 589865004154 Walker B motif; other site 589865004155 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 589865004156 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 589865004157 RuvA N terminal domain; Region: RuvA_N; pfam01330 589865004158 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 589865004159 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 589865004160 active site 589865004161 putative DNA-binding cleft [nucleotide binding]; other site 589865004162 dimer interface [polypeptide binding]; other site 589865004163 hypothetical protein; Validated; Region: PRK00110 589865004164 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 589865004165 FtsJ-like methyltransferase; Region: FtsJ; cl17430 589865004166 Predicted methyltransferases [General function prediction only]; Region: COG0313 589865004167 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 589865004168 putative SAM binding site [chemical binding]; other site 589865004169 putative homodimer interface [polypeptide binding]; other site 589865004170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 589865004171 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865004172 ATP binding site [chemical binding]; other site 589865004173 Mg2+ binding site [ion binding]; other site 589865004174 G-X-G motif; other site 589865004175 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 589865004176 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 589865004177 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 589865004178 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 589865004179 S-adenosylmethionine binding site [chemical binding]; other site 589865004180 Methyltransferase domain; Region: Methyltransf_23; pfam13489 589865004181 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 589865004182 S-adenosylmethionine binding site [chemical binding]; other site 589865004183 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 589865004184 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 589865004185 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 589865004186 PhoU domain; Region: PhoU; pfam01895 589865004187 PhoU domain; Region: PhoU; pfam01895 589865004188 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 589865004189 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 589865004190 arginine decarboxylase; Provisional; Region: PRK05354 589865004191 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 589865004192 dimer interface [polypeptide binding]; other site 589865004193 active site 589865004194 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 589865004195 catalytic residues [active] 589865004196 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 589865004197 helicase 45; Provisional; Region: PTZ00424 589865004198 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 589865004199 ATP binding site [chemical binding]; other site 589865004200 Mg++ binding site [ion binding]; other site 589865004201 motif III; other site 589865004202 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 589865004203 nucleotide binding region [chemical binding]; other site 589865004204 ATP-binding site [chemical binding]; other site 589865004205 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 589865004206 nickel binding site [ion binding]; other site 589865004207 Predicted phosphoesterase (MutT family) [General function prediction only]; Region: COG4112 589865004208 exonuclease subunit SbcD; Provisional; Region: PRK10966 589865004209 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 589865004210 active site 589865004211 metal binding site [ion binding]; metal-binding site 589865004212 DNA binding site [nucleotide binding] 589865004213 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 589865004214 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865004215 AAA domain; Region: AAA_23; pfam13476 589865004216 Walker A/P-loop; other site 589865004217 ATP binding site [chemical binding]; other site 589865004218 Q-loop/lid; other site 589865004219 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 589865004220 ABC transporter signature motif; other site 589865004221 Walker B; other site 589865004222 D-loop; other site 589865004223 H-loop/switch region; other site 589865004224 endonuclease IV; Provisional; Region: PRK01060 589865004225 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 589865004226 AP (apurinic/apyrimidinic) site pocket; other site 589865004227 DNA interaction; other site 589865004228 Metal-binding active site; metal-binding site 589865004229 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 589865004230 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 589865004231 Metal-binding active site; metal-binding site 589865004232 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 589865004233 30S subunit binding site; other site 589865004234 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 589865004235 DNA-binding site [nucleotide binding]; DNA binding site 589865004236 RNA-binding motif; other site 589865004237 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 589865004238 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 589865004239 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 589865004240 FAD binding pocket [chemical binding]; other site 589865004241 FAD binding motif [chemical binding]; other site 589865004242 phosphate binding motif [ion binding]; other site 589865004243 beta-alpha-beta structure motif; other site 589865004244 NAD binding pocket [chemical binding]; other site 589865004245 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 589865004246 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 589865004247 FeS/SAM binding site; other site 589865004248 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 589865004249 metal ion-dependent adhesion site (MIDAS); other site 589865004250 MoxR-like ATPases [General function prediction only]; Region: COG0714 589865004251 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 589865004252 Walker A motif; other site 589865004253 ATP binding site [chemical binding]; other site 589865004254 Walker B motif; other site 589865004255 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 589865004256 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 589865004257 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 589865004258 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 589865004259 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 589865004260 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 589865004261 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 589865004262 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 589865004263 DNA binding residues [nucleotide binding] 589865004264 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 589865004265 IHF dimer interface [polypeptide binding]; other site 589865004266 IHF - DNA interface [nucleotide binding]; other site 589865004267 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 589865004268 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 589865004269 putative tRNA-binding site [nucleotide binding]; other site 589865004270 B3/4 domain; Region: B3_4; pfam03483 589865004271 tRNA synthetase B5 domain; Region: B5; pfam03484 589865004272 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 589865004273 dimer interface [polypeptide binding]; other site 589865004274 motif 1; other site 589865004275 motif 3; other site 589865004276 motif 2; other site 589865004277 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 589865004278 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 589865004279 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 589865004280 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 589865004281 dimer interface [polypeptide binding]; other site 589865004282 motif 1; other site 589865004283 active site 589865004284 motif 2; other site 589865004285 motif 3; other site 589865004286 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 589865004287 23S rRNA binding site [nucleotide binding]; other site 589865004288 L21 binding site [polypeptide binding]; other site 589865004289 L13 binding site [polypeptide binding]; other site 589865004290 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 589865004291 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 589865004292 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 589865004293 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 589865004294 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 589865004295 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 589865004296 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 589865004297 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 589865004298 active site 589865004299 dimer interface [polypeptide binding]; other site 589865004300 motif 1; other site 589865004301 motif 2; other site 589865004302 motif 3; other site 589865004303 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 589865004304 anticodon binding site; other site 589865004305 recombination protein RecR; Reviewed; Region: recR; PRK00076 589865004306 RecR protein; Region: RecR; pfam02132 589865004307 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 589865004308 putative active site [active] 589865004309 putative metal-binding site [ion binding]; other site 589865004310 tetramer interface [polypeptide binding]; other site 589865004311 hypothetical protein; Validated; Region: PRK00153 589865004312 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 589865004313 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 589865004314 Walker A motif; other site 589865004315 ATP binding site [chemical binding]; other site 589865004316 Walker B motif; other site 589865004317 arginine finger; other site 589865004318 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 589865004319 flagellin; Provisional; Region: PRK12802 589865004320 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 589865004321 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 589865004322 pyruvate kinase complex alpha subunit; Region: PLN02762 589865004323 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 589865004324 domain interfaces; other site 589865004325 active site 589865004326 multidrug efflux protein; Reviewed; Region: PRK01766 589865004327 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 589865004328 cation binding site [ion binding]; other site 589865004329 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 589865004330 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 589865004331 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 589865004332 putative inner membrane protein; Provisional; Region: PRK11099 589865004333 putative inner membrane protein; Provisional; Region: PRK11099 589865004334 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 589865004335 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 589865004336 active site 589865004337 DNA binding site [nucleotide binding] 589865004338 Int/Topo IB signature motif; other site 589865004339 Helix-turn-helix domain; Region: HTH_17; pfam12728 589865004340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 589865004341 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 589865004342 active site 589865004343 metal binding site [ion binding]; metal-binding site 589865004344 interdomain interaction site; other site 589865004345 D5 N terminal like; Region: D5_N; pfam08706 589865004346 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 589865004347 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 589865004348 Phage Terminase; Region: Terminase_1; pfam03354 589865004349 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 589865004350 AMMECR1; Region: AMMECR1; pfam01871 589865004351 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 589865004352 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 589865004353 phosphofructokinase; Region: PFK_mixed; TIGR02483 589865004354 active site 589865004355 ADP/pyrophosphate binding site [chemical binding]; other site 589865004356 dimerization interface [polypeptide binding]; other site 589865004357 allosteric effector site; other site 589865004358 fructose-1,6-bisphosphate binding site; other site 589865004359 Transposase, Mutator family; Region: Transposase_mut; pfam00872 589865004360 MULE transposase domain; Region: MULE; pfam10551 589865004361 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 589865004362 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 589865004363 active site 589865004364 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 589865004365 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 589865004366 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 589865004367 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 589865004368 Part of AAA domain; Region: AAA_19; pfam13245 589865004369 Family description; Region: UvrD_C_2; pfam13538 589865004370 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 589865004371 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 589865004372 active site 589865004373 dimer interface [polypeptide binding]; other site 589865004374 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 589865004375 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 589865004376 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 589865004377 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 589865004378 putative RNA binding site [nucleotide binding]; other site 589865004379 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 589865004380 homopentamer interface [polypeptide binding]; other site 589865004381 active site 589865004382 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 589865004383 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 589865004384 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 589865004385 dimerization interface [polypeptide binding]; other site 589865004386 active site 589865004387 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 589865004388 Lumazine binding domain; Region: Lum_binding; pfam00677 589865004389 Lumazine binding domain; Region: Lum_binding; pfam00677 589865004390 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 589865004391 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 589865004392 catalytic motif [active] 589865004393 Zn binding site [ion binding]; other site 589865004394 RibD C-terminal domain; Region: RibD_C; cl17279 589865004395 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 589865004396 ATP cone domain; Region: ATP-cone; pfam03477 589865004397 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 589865004398 catalytic motif [active] 589865004399 Zn binding site [ion binding]; other site 589865004400 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 589865004401 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 589865004402 dimer interface [polypeptide binding]; other site 589865004403 active site 589865004404 glycine-pyridoxal phosphate binding site [chemical binding]; other site 589865004405 folate binding site [chemical binding]; other site 589865004406 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 589865004407 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 589865004408 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 589865004409 dimer interface [polypeptide binding]; other site 589865004410 active site 589865004411 acyl carrier protein; Provisional; Region: acpP; PRK00982 589865004412 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 589865004413 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 589865004414 NAD(P) binding site [chemical binding]; other site 589865004415 homotetramer interface [polypeptide binding]; other site 589865004416 homodimer interface [polypeptide binding]; other site 589865004417 active site 589865004418 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 589865004419 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 589865004420 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 589865004421 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 589865004422 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 589865004423 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 589865004424 Ligand binding site [chemical binding]; other site 589865004425 Electron transfer flavoprotein domain; Region: ETF; pfam01012 589865004426 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 589865004427 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 589865004428 active site 589865004429 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 589865004430 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 589865004431 dimer interface [polypeptide binding]; other site 589865004432 active site 589865004433 CoA binding pocket [chemical binding]; other site 589865004434 putative phosphate acyltransferase; Provisional; Region: PRK05331 589865004435 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 589865004436 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 589865004437 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 589865004438 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 589865004439 ligand binding site [chemical binding]; other site 589865004440 flexible hinge region; other site 589865004441 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 589865004442 VacJ like lipoprotein; Region: VacJ; cl01073 589865004443 mce related protein; Region: MCE; pfam02470 589865004444 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 589865004445 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 589865004446 Walker A/P-loop; other site 589865004447 ATP binding site [chemical binding]; other site 589865004448 Q-loop/lid; other site 589865004449 ABC transporter signature motif; other site 589865004450 Walker B; other site 589865004451 D-loop; other site 589865004452 H-loop/switch region; other site 589865004453 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 589865004454 Permease; Region: Permease; pfam02405 589865004455 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 589865004456 Found in ATP-dependent protease La (LON); Region: LON; smart00464 589865004457 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 589865004458 Walker A motif; other site 589865004459 ATP binding site [chemical binding]; other site 589865004460 Walker B motif; other site 589865004461 arginine finger; other site 589865004462 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 589865004463 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 589865004464 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 589865004465 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 589865004466 Walker A motif; other site 589865004467 ATP binding site [chemical binding]; other site 589865004468 Walker B motif; other site 589865004469 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 589865004470 Clp protease; Region: CLP_protease; pfam00574 589865004471 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 589865004472 oligomer interface [polypeptide binding]; other site 589865004473 active site residues [active] 589865004474 trigger factor; Region: tig; TIGR00115 589865004475 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 589865004476 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 589865004477 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 589865004478 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 589865004479 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 589865004480 dimer interface [polypeptide binding]; other site 589865004481 putative anticodon binding site; other site 589865004482 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 589865004483 motif 1; other site 589865004484 active site 589865004485 motif 2; other site 589865004486 motif 3; other site 589865004487 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 589865004488 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 589865004489 FtsX-like permease family; Region: FtsX; pfam02687 589865004490 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 589865004491 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 589865004492 Walker A/P-loop; other site 589865004493 ATP binding site [chemical binding]; other site 589865004494 Q-loop/lid; other site 589865004495 ABC transporter signature motif; other site 589865004496 Walker B; other site 589865004497 D-loop; other site 589865004498 H-loop/switch region; other site 589865004499 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 589865004500 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 589865004501 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 589865004502 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 589865004503 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 589865004504 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 589865004505 Surface antigen; Region: Bac_surface_Ag; pfam01103 589865004506 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 589865004507 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 589865004508 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 589865004509 ATP binding site [chemical binding]; other site 589865004510 putative Mg++ binding site [ion binding]; other site 589865004511 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 589865004512 nucleotide binding region [chemical binding]; other site 589865004513 ATP-binding site [chemical binding]; other site 589865004514 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 589865004515 SurA N-terminal domain; Region: SurA_N; pfam09312 589865004516 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 589865004517 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 589865004518 non-specific DNA binding site [nucleotide binding]; other site 589865004519 salt bridge; other site 589865004520 sequence-specific DNA binding site [nucleotide binding]; other site 589865004521 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 589865004522 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 589865004523 Recombination protein O N terminal; Region: RecO_N; pfam11967 589865004524 Recombination protein O C terminal; Region: RecO_C; pfam02565 589865004525 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 589865004526 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 589865004527 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 589865004528 homodimer interface [polypeptide binding]; other site 589865004529 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 589865004530 active site pocket [active] 589865004531 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 589865004532 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 589865004533 active site 589865004534 NTP binding site [chemical binding]; other site 589865004535 metal binding triad [ion binding]; metal-binding site 589865004536 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865004537 Zn2+ binding site [ion binding]; other site 589865004538 Mg2+ binding site [ion binding]; other site 589865004539 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 589865004540 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 589865004541 Hemerythrin; Region: Hemerythrin; cd12107 589865004542 Fe binding site [ion binding]; other site 589865004543 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 589865004544 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 589865004545 ATP binding site [chemical binding]; other site 589865004546 putative Mg++ binding site [ion binding]; other site 589865004547 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 589865004548 nucleotide binding region [chemical binding]; other site 589865004549 ATP-binding site [chemical binding]; other site 589865004550 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 589865004551 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 589865004552 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 589865004553 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 589865004554 dimer interface [polypeptide binding]; other site 589865004555 phosphorylation site [posttranslational modification] 589865004556 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865004557 ATP binding site [chemical binding]; other site 589865004558 Mg2+ binding site [ion binding]; other site 589865004559 G-X-G motif; other site 589865004560 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 589865004561 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865004562 active site 589865004563 phosphorylation site [posttranslational modification] 589865004564 intermolecular recognition site; other site 589865004565 dimerization interface [polypeptide binding]; other site 589865004566 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 589865004567 DNA binding site [nucleotide binding] 589865004568 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 589865004569 OstA-like protein; Region: OstA; cl00844 589865004570 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 589865004571 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 589865004572 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 589865004573 CTP synthetase; Validated; Region: pyrG; PRK05380 589865004574 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 589865004575 Catalytic site [active] 589865004576 active site 589865004577 UTP binding site [chemical binding]; other site 589865004578 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 589865004579 active site 589865004580 putative oxyanion hole; other site 589865004581 catalytic triad [active] 589865004582 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 589865004583 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 589865004584 Sporulation related domain; Region: SPOR; pfam05036 589865004585 chaperone protein DnaJ; Provisional; Region: PRK14301 589865004586 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 589865004587 HSP70 interaction site [polypeptide binding]; other site 589865004588 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 589865004589 substrate binding site [polypeptide binding]; other site 589865004590 dimer interface [polypeptide binding]; other site 589865004591 Response regulator receiver domain; Region: Response_reg; pfam00072 589865004592 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865004593 active site 589865004594 phosphorylation site [posttranslational modification] 589865004595 intermolecular recognition site; other site 589865004596 dimerization interface [polypeptide binding]; other site 589865004597 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865004598 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865004599 metal binding site [ion binding]; metal-binding site 589865004600 active site 589865004601 I-site; other site 589865004602 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 589865004603 CheB methylesterase; Region: CheB_methylest; pfam01339 589865004604 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 589865004605 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 589865004606 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 589865004607 PAS domain; Region: PAS_9; pfam13426 589865004608 putative active site [active] 589865004609 heme pocket [chemical binding]; other site 589865004610 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 589865004611 GAF domain; Region: GAF_3; pfam13492 589865004612 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 589865004613 dimer interface [polypeptide binding]; other site 589865004614 phosphorylation site [posttranslational modification] 589865004615 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865004616 ATP binding site [chemical binding]; other site 589865004617 Mg2+ binding site [ion binding]; other site 589865004618 G-X-G motif; other site 589865004619 Response regulator receiver domain; Region: Response_reg; pfam00072 589865004620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865004621 active site 589865004622 phosphorylation site [posttranslational modification] 589865004623 intermolecular recognition site; other site 589865004624 dimerization interface [polypeptide binding]; other site 589865004625 Response regulator receiver domain; Region: Response_reg; pfam00072 589865004626 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865004627 active site 589865004628 phosphorylation site [posttranslational modification] 589865004629 intermolecular recognition site; other site 589865004630 dimerization interface [polypeptide binding]; other site 589865004631 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865004632 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865004633 active site 589865004634 phosphorylation site [posttranslational modification] 589865004635 intermolecular recognition site; other site 589865004636 dimerization interface [polypeptide binding]; other site 589865004637 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 589865004638 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 589865004639 ATP binding site [chemical binding]; other site 589865004640 active site 589865004641 substrate binding site [chemical binding]; other site 589865004642 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 589865004643 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 589865004644 putative substrate binding site [chemical binding]; other site 589865004645 putative ATP binding site [chemical binding]; other site 589865004646 sucrose synthase; Region: sucr_synth; TIGR02470 589865004647 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 589865004648 putative ADP-binding pocket [chemical binding]; other site 589865004649 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 589865004650 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 589865004651 putative ADP-binding pocket [chemical binding]; other site 589865004652 sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial; Region: sucr_syn_bact_C; TIGR02471 589865004653 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 589865004654 active site 589865004655 motif I; other site 589865004656 motif II; other site 589865004657 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 589865004658 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865004659 ATP binding site [chemical binding]; other site 589865004660 Mg2+ binding site [ion binding]; other site 589865004661 G-X-G motif; other site 589865004662 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 589865004663 ATP binding site [chemical binding]; other site 589865004664 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 589865004665 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 589865004666 Peptidase family M23; Region: Peptidase_M23; pfam01551 589865004667 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 589865004668 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 589865004669 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 589865004670 dimer interface [polypeptide binding]; other site 589865004671 phosphorylation site [posttranslational modification] 589865004672 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865004673 ATP binding site [chemical binding]; other site 589865004674 Mg2+ binding site [ion binding]; other site 589865004675 G-X-G motif; other site 589865004676 Response regulator receiver domain; Region: Response_reg; pfam00072 589865004677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865004678 active site 589865004679 phosphorylation site [posttranslational modification] 589865004680 intermolecular recognition site; other site 589865004681 dimerization interface [polypeptide binding]; other site 589865004682 HDOD domain; Region: HDOD; pfam08668 589865004683 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865004684 Zn2+ binding site [ion binding]; other site 589865004685 Mg2+ binding site [ion binding]; other site 589865004686 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 589865004687 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 589865004688 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 589865004689 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 589865004690 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 589865004691 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 589865004692 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 589865004693 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 589865004694 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 589865004695 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 589865004696 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 589865004697 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 589865004698 Tetratricopeptide repeat; Region: TPR_16; pfam13432 589865004699 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 589865004700 binding surface 589865004701 TPR motif; other site 589865004702 Bacterial transcriptional activator domain; Region: BTAD; smart01043 589865004703 Tetratricopeptide repeat; Region: TPR_16; pfam13432 589865004704 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 589865004705 binding surface 589865004706 TPR motif; other site 589865004707 TPR repeat; Region: TPR_11; pfam13414 589865004708 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 589865004709 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 589865004710 inhibitor-cofactor binding pocket; inhibition site 589865004711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865004712 catalytic residue [active] 589865004713 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 589865004714 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 589865004715 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 589865004716 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 589865004717 DNA binding residues [nucleotide binding] 589865004718 GTP-binding protein LepA; Provisional; Region: PRK05433 589865004719 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 589865004720 G1 box; other site 589865004721 putative GEF interaction site [polypeptide binding]; other site 589865004722 GTP/Mg2+ binding site [chemical binding]; other site 589865004723 Switch I region; other site 589865004724 G2 box; other site 589865004725 G3 box; other site 589865004726 Switch II region; other site 589865004727 G4 box; other site 589865004728 G5 box; other site 589865004729 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 589865004730 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 589865004731 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 589865004732 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 589865004733 G1 box; other site 589865004734 GTP/Mg2+ binding site [chemical binding]; other site 589865004735 Switch I region; other site 589865004736 G2 box; other site 589865004737 G3 box; other site 589865004738 Switch II region; other site 589865004739 G4 box; other site 589865004740 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 589865004741 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 589865004742 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 589865004743 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 589865004744 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 589865004745 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 589865004746 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 589865004747 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 589865004748 dimer interface [polypeptide binding]; other site 589865004749 phosphorylation site [posttranslational modification] 589865004750 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865004751 ATP binding site [chemical binding]; other site 589865004752 Mg2+ binding site [ion binding]; other site 589865004753 G-X-G motif; other site 589865004754 Response regulator receiver domain; Region: Response_reg; pfam00072 589865004755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865004756 active site 589865004757 phosphorylation site [posttranslational modification] 589865004758 intermolecular recognition site; other site 589865004759 dimerization interface [polypeptide binding]; other site 589865004760 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865004761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865004762 active site 589865004763 phosphorylation site [posttranslational modification] 589865004764 intermolecular recognition site; other site 589865004765 dimerization interface [polypeptide binding]; other site 589865004766 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 589865004767 dimer interface [polypeptide binding]; other site 589865004768 phosphorylation site [posttranslational modification] 589865004769 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865004770 ATP binding site [chemical binding]; other site 589865004771 Mg2+ binding site [ion binding]; other site 589865004772 G-X-G motif; other site 589865004773 Response regulator receiver domain; Region: Response_reg; pfam00072 589865004774 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865004775 active site 589865004776 phosphorylation site [posttranslational modification] 589865004777 intermolecular recognition site; other site 589865004778 dimerization interface [polypeptide binding]; other site 589865004779 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 589865004780 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 589865004781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865004782 catalytic residue [active] 589865004783 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 589865004784 substrate binding site [chemical binding]; other site 589865004785 active site 589865004786 catalytic residues [active] 589865004787 heterodimer interface [polypeptide binding]; other site 589865004788 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 589865004789 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 589865004790 ligand binding site; other site 589865004791 oligomer interface; other site 589865004792 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 589865004793 dimer interface [polypeptide binding]; other site 589865004794 N-terminal domain interface [polypeptide binding]; other site 589865004795 sulfate 1 binding site; other site 589865004796 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 589865004797 ADP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: GlgC; COG0448 589865004798 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 589865004799 ligand binding site; other site 589865004800 oligomer interface; other site 589865004801 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 589865004802 dimer interface [polypeptide binding]; other site 589865004803 N-terminal domain interface [polypeptide binding]; other site 589865004804 sulfate 1 binding site; other site 589865004805 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 589865004806 DHH family; Region: DHH; pfam01368 589865004807 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 589865004808 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 589865004809 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 589865004810 Walker A/P-loop; other site 589865004811 ATP binding site [chemical binding]; other site 589865004812 Q-loop/lid; other site 589865004813 ABC transporter signature motif; other site 589865004814 Walker B; other site 589865004815 D-loop; other site 589865004816 H-loop/switch region; other site 589865004817 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 589865004818 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 589865004819 Predicted permeases [General function prediction only]; Region: COG0795 589865004820 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 589865004821 Predicted permeases [General function prediction only]; Region: COG0795 589865004822 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 589865004823 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 589865004824 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 589865004825 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 589865004826 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 589865004827 Ligand Binding Site [chemical binding]; other site 589865004828 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 589865004829 Ligand Binding Site [chemical binding]; other site 589865004830 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 589865004831 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865004832 putative active site [active] 589865004833 heme pocket [chemical binding]; other site 589865004834 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865004835 ATP binding site [chemical binding]; other site 589865004836 Mg2+ binding site [ion binding]; other site 589865004837 G-X-G motif; other site 589865004838 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 589865004839 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 589865004840 putative ligand binding site [chemical binding]; other site 589865004841 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865004842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865004843 active site 589865004844 phosphorylation site [posttranslational modification] 589865004845 intermolecular recognition site; other site 589865004846 dimerization interface [polypeptide binding]; other site 589865004847 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 589865004848 Walker A motif; other site 589865004849 ATP binding site [chemical binding]; other site 589865004850 Walker B motif; other site 589865004851 arginine finger; other site 589865004852 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865004853 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 589865004854 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 589865004855 molybdopterin cofactor binding site; other site 589865004856 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 589865004857 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 589865004858 molybdopterin cofactor binding site; other site 589865004859 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 589865004860 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 589865004861 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 589865004862 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 589865004863 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 589865004864 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 589865004865 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 589865004866 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 589865004867 dimer interface [polypeptide binding]; other site 589865004868 putative functional site; other site 589865004869 putative MPT binding site; other site 589865004870 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 589865004871 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 589865004872 dimer interface [polypeptide binding]; other site 589865004873 putative functional site; other site 589865004874 putative MPT binding site; other site 589865004875 PBP superfamily domain; Region: PBP_like; pfam12727 589865004876 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 589865004877 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 589865004878 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 589865004879 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 589865004880 Walker A/P-loop; other site 589865004881 ATP binding site [chemical binding]; other site 589865004882 Q-loop/lid; other site 589865004883 ABC transporter signature motif; other site 589865004884 Walker B; other site 589865004885 D-loop; other site 589865004886 H-loop/switch region; other site 589865004887 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 589865004888 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 589865004889 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 589865004890 Walker A motif; other site 589865004891 ATP binding site [chemical binding]; other site 589865004892 Walker B motif; other site 589865004893 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 589865004894 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 589865004895 salt bridge; other site 589865004896 non-specific DNA binding site [nucleotide binding]; other site 589865004897 sequence-specific DNA binding site [nucleotide binding]; other site 589865004898 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 589865004899 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 589865004900 Methyltransferase domain; Region: Methyltransf_31; pfam13847 589865004901 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 589865004902 S-adenosylmethionine binding site [chemical binding]; other site 589865004903 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 589865004904 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 589865004905 dimer interface [polypeptide binding]; other site 589865004906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865004907 catalytic residue [active] 589865004908 Uncharacterized conserved protein [Function unknown]; Region: COG2835 589865004909 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 589865004910 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 589865004911 active site 589865004912 PHP Thumb interface [polypeptide binding]; other site 589865004913 metal binding site [ion binding]; metal-binding site 589865004914 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 589865004915 generic binding surface II; other site 589865004916 generic binding surface I; other site 589865004917 AAA domain; Region: AAA_14; pfam13173 589865004918 AAA domain; Region: AAA_22; pfam13401 589865004919 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 589865004920 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 589865004921 flagellin B; Provisional; Region: PRK13588 589865004922 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 589865004923 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 589865004924 Fic family protein [Function unknown]; Region: COG3177 589865004925 Fic/DOC family; Region: Fic; pfam02661 589865004926 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 589865004927 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 589865004928 Walker A motif; other site 589865004929 ATP binding site [chemical binding]; other site 589865004930 Walker B motif; other site 589865004931 arginine finger; other site 589865004932 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 589865004933 AAA domain; Region: AAA_14; pfam13173 589865004934 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 589865004935 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 589865004936 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 589865004937 non-specific DNA binding site [nucleotide binding]; other site 589865004938 salt bridge; other site 589865004939 sequence-specific DNA binding site [nucleotide binding]; other site 589865004940 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 589865004941 putative active site [active] 589865004942 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 589865004943 Putative catalytic domain of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar3; cd09131 589865004944 PLD-like domain; Region: PLDc_2; pfam13091 589865004945 putative active site [active] 589865004946 putative catalytic site [active] 589865004947 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 589865004948 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 589865004949 Substrate binding site; other site 589865004950 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 589865004951 phosphomannomutase CpsG; Provisional; Region: PRK15414 589865004952 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 589865004953 active site 589865004954 substrate binding site [chemical binding]; other site 589865004955 metal binding site [ion binding]; metal-binding site 589865004956 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 589865004957 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 589865004958 ATP binding site [chemical binding]; other site 589865004959 Mg++ binding site [ion binding]; other site 589865004960 motif III; other site 589865004961 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 589865004962 nucleotide binding region [chemical binding]; other site 589865004963 ATP-binding site [chemical binding]; other site 589865004964 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 589865004965 putative RNA binding site [nucleotide binding]; other site 589865004966 bidirectional hydrogenase complex protein HoxE; Reviewed; Region: PRK07571 589865004967 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 589865004968 putative dimer interface [polypeptide binding]; other site 589865004969 [2Fe-2S] cluster binding site [ion binding]; other site 589865004970 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 589865004971 dimer interface [polypeptide binding]; other site 589865004972 [2Fe-2S] cluster binding site [ion binding]; other site 589865004973 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 589865004974 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 589865004975 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 589865004976 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 589865004977 catalytic loop [active] 589865004978 iron binding site [ion binding]; other site 589865004979 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 589865004980 4Fe-4S binding domain; Region: Fer4; pfam00037 589865004981 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 589865004982 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 589865004983 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 589865004984 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 589865004985 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 589865004986 FeS/SAM binding site; other site 589865004987 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 589865004988 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 589865004989 ThiS interaction site; other site 589865004990 putative active site [active] 589865004991 tetramer interface [polypeptide binding]; other site 589865004992 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 589865004993 thiS-thiF/thiG interaction site; other site 589865004994 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 589865004995 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 589865004996 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 589865004997 alphaNTD homodimer interface [polypeptide binding]; other site 589865004998 alphaNTD - beta interaction site [polypeptide binding]; other site 589865004999 alphaNTD - beta' interaction site [polypeptide binding]; other site 589865005000 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 589865005001 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 589865005002 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 589865005003 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 589865005004 RNA binding surface [nucleotide binding]; other site 589865005005 30S ribosomal protein S11; Validated; Region: PRK05309 589865005006 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 589865005007 30S ribosomal protein S13; Region: bact_S13; TIGR03631 589865005008 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 589865005009 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 589865005010 rRNA binding site [nucleotide binding]; other site 589865005011 predicted 30S ribosome binding site; other site 589865005012 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 589865005013 active site 589865005014 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 589865005015 SecY translocase; Region: SecY; pfam00344 589865005016 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 589865005017 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 589865005018 23S rRNA binding site [nucleotide binding]; other site 589865005019 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 589865005020 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 589865005021 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 589865005022 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 589865005023 5S rRNA interface [nucleotide binding]; other site 589865005024 L27 interface [polypeptide binding]; other site 589865005025 23S rRNA interface [nucleotide binding]; other site 589865005026 L5 interface [polypeptide binding]; other site 589865005027 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 589865005028 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 589865005029 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 589865005030 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 589865005031 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 589865005032 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 589865005033 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 589865005034 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 589865005035 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 589865005036 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 589865005037 RNA binding site [nucleotide binding]; other site 589865005038 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 589865005039 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 589865005040 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 589865005041 L23 interface [polypeptide binding]; other site 589865005042 trigger factor interaction site; other site 589865005043 23S rRNA interface [nucleotide binding]; other site 589865005044 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 589865005045 23S rRNA interface [nucleotide binding]; other site 589865005046 5S rRNA interface [nucleotide binding]; other site 589865005047 putative antibiotic binding site [chemical binding]; other site 589865005048 L25 interface [polypeptide binding]; other site 589865005049 L27 interface [polypeptide binding]; other site 589865005050 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 589865005051 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 589865005052 G-X-X-G motif; other site 589865005053 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 589865005054 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 589865005055 putative translocon binding site; other site 589865005056 protein-rRNA interface [nucleotide binding]; other site 589865005057 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 589865005058 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 589865005059 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 589865005060 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 589865005061 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 589865005062 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 589865005063 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 589865005064 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 589865005065 elongation factor Tu; Reviewed; Region: PRK00049 589865005066 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 589865005067 G1 box; other site 589865005068 GEF interaction site [polypeptide binding]; other site 589865005069 GTP/Mg2+ binding site [chemical binding]; other site 589865005070 Switch I region; other site 589865005071 G2 box; other site 589865005072 G3 box; other site 589865005073 Switch II region; other site 589865005074 G4 box; other site 589865005075 G5 box; other site 589865005076 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 589865005077 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 589865005078 Antibiotic Binding Site [chemical binding]; other site 589865005079 elongation factor G; Reviewed; Region: PRK00007 589865005080 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 589865005081 G1 box; other site 589865005082 putative GEF interaction site [polypeptide binding]; other site 589865005083 GTP/Mg2+ binding site [chemical binding]; other site 589865005084 Switch I region; other site 589865005085 G2 box; other site 589865005086 G3 box; other site 589865005087 Switch II region; other site 589865005088 G4 box; other site 589865005089 G5 box; other site 589865005090 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 589865005091 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 589865005092 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 589865005093 30S ribosomal protein S7; Validated; Region: PRK05302 589865005094 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 589865005095 S17 interaction site [polypeptide binding]; other site 589865005096 S8 interaction site; other site 589865005097 16S rRNA interaction site [nucleotide binding]; other site 589865005098 streptomycin interaction site [chemical binding]; other site 589865005099 23S rRNA interaction site [nucleotide binding]; other site 589865005100 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 589865005101 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 589865005102 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 589865005103 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 589865005104 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 589865005105 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 589865005106 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 589865005107 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 589865005108 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 589865005109 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 589865005110 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 589865005111 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 589865005112 DNA binding site [nucleotide binding] 589865005113 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 589865005114 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 589865005115 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 589865005116 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 589865005117 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 589865005118 RPB11 interaction site [polypeptide binding]; other site 589865005119 RPB12 interaction site [polypeptide binding]; other site 589865005120 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 589865005121 RPB3 interaction site [polypeptide binding]; other site 589865005122 RPB1 interaction site [polypeptide binding]; other site 589865005123 RPB11 interaction site [polypeptide binding]; other site 589865005124 RPB10 interaction site [polypeptide binding]; other site 589865005125 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 589865005126 L11 interface [polypeptide binding]; other site 589865005127 putative EF-Tu interaction site [polypeptide binding]; other site 589865005128 putative EF-G interaction site [polypeptide binding]; other site 589865005129 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 589865005130 23S rRNA interface [nucleotide binding]; other site 589865005131 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 589865005132 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 589865005133 mRNA/rRNA interface [nucleotide binding]; other site 589865005134 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 589865005135 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 589865005136 23S rRNA interface [nucleotide binding]; other site 589865005137 L7/L12 interface [polypeptide binding]; other site 589865005138 putative thiostrepton binding site; other site 589865005139 L25 interface [polypeptide binding]; other site 589865005140 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 589865005141 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 589865005142 putative homodimer interface [polypeptide binding]; other site 589865005143 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 589865005144 heterodimer interface [polypeptide binding]; other site 589865005145 homodimer interface [polypeptide binding]; other site 589865005146 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 589865005147 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 589865005148 elongation factor Tu; Reviewed; Region: PRK00049 589865005149 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 589865005150 G1 box; other site 589865005151 GEF interaction site [polypeptide binding]; other site 589865005152 GTP/Mg2+ binding site [chemical binding]; other site 589865005153 Switch I region; other site 589865005154 G2 box; other site 589865005155 G3 box; other site 589865005156 Switch II region; other site 589865005157 G4 box; other site 589865005158 G5 box; other site 589865005159 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 589865005160 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 589865005161 Antibiotic Binding Site [chemical binding]; other site 589865005162 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 589865005163 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 589865005164 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 589865005165 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 589865005166 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 589865005167 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 589865005168 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 589865005169 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 589865005170 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 589865005171 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 589865005172 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 589865005173 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 589865005174 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 589865005175 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 589865005176 Flagellin N-methylase; Region: FliB; pfam03692 589865005177 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 589865005178 dimer interface [polypeptide binding]; other site 589865005179 phosphorylation site [posttranslational modification] 589865005180 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865005181 ATP binding site [chemical binding]; other site 589865005182 Mg2+ binding site [ion binding]; other site 589865005183 G-X-G motif; other site 589865005184 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 589865005185 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 589865005186 FeS/SAM binding site; other site 589865005187 cell division protein FtsZ; Validated; Region: PRK09330 589865005188 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 589865005189 nucleotide binding site [chemical binding]; other site 589865005190 SulA interaction site; other site 589865005191 cell division protein FtsA; Region: ftsA; TIGR01174 589865005192 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 589865005193 nucleotide binding site [chemical binding]; other site 589865005194 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 589865005195 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 589865005196 Cell division protein FtsA; Region: FtsA; pfam14450 589865005197 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 589865005198 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 589865005199 FAD binding domain; Region: FAD_binding_4; pfam01565 589865005200 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 589865005201 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 589865005202 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 589865005203 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 589865005204 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 589865005205 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 589865005206 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 589865005207 active site 589865005208 homodimer interface [polypeptide binding]; other site 589865005209 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 589865005210 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 589865005211 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 589865005212 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 589865005213 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 589865005214 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 589865005215 Mg++ binding site [ion binding]; other site 589865005216 putative catalytic motif [active] 589865005217 putative substrate binding site [chemical binding]; other site 589865005218 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 589865005219 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 589865005220 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 589865005221 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 589865005222 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 589865005223 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 589865005224 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 589865005225 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 589865005226 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 589865005227 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 589865005228 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 589865005229 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 589865005230 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 589865005231 MraW methylase family; Region: Methyltransf_5; cl17771 589865005232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 589865005233 MraZ protein; Region: MraZ; pfam02381 589865005234 MraZ protein; Region: MraZ; pfam02381 589865005235 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 589865005236 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 589865005237 G1 box; other site 589865005238 putative GEF interaction site [polypeptide binding]; other site 589865005239 GTP/Mg2+ binding site [chemical binding]; other site 589865005240 Switch I region; other site 589865005241 G2 box; other site 589865005242 G3 box; other site 589865005243 Switch II region; other site 589865005244 G4 box; other site 589865005245 G5 box; other site 589865005246 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 589865005247 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 589865005248 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 589865005249 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 589865005250 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 589865005251 Walker A motif; other site 589865005252 ATP binding site [chemical binding]; other site 589865005253 Walker B motif; other site 589865005254 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 589865005255 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 589865005256 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 589865005257 protein binding site [polypeptide binding]; other site 589865005258 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 589865005259 protein binding site [polypeptide binding]; other site 589865005260 Putative zinc-finger; Region: zf-HC2; pfam13490 589865005261 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 589865005262 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 589865005263 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 589865005264 DNA binding residues [nucleotide binding] 589865005265 thiamine monophosphate kinase; Provisional; Region: PRK05731 589865005266 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 589865005267 ATP binding site [chemical binding]; other site 589865005268 dimerization interface [polypeptide binding]; other site 589865005269 excinuclease ABC subunit B; Provisional; Region: PRK05298 589865005270 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 589865005271 ATP binding site [chemical binding]; other site 589865005272 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 589865005273 nucleotide binding region [chemical binding]; other site 589865005274 ATP-binding site [chemical binding]; other site 589865005275 Ultra-violet resistance protein B; Region: UvrB; pfam12344 589865005276 UvrB/uvrC motif; Region: UVR; pfam02151 589865005277 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 589865005278 putative acyl-acceptor binding pocket; other site 589865005279 Response regulator receiver domain; Region: Response_reg; pfam00072 589865005280 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865005281 active site 589865005282 phosphorylation site [posttranslational modification] 589865005283 intermolecular recognition site; other site 589865005284 dimerization interface [polypeptide binding]; other site 589865005285 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 589865005286 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 589865005287 minor groove reading motif; other site 589865005288 helix-hairpin-helix signature motif; other site 589865005289 substrate binding pocket [chemical binding]; other site 589865005290 active site 589865005291 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 589865005292 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 589865005293 putative catalytic site [active] 589865005294 putative metal binding site [ion binding]; other site 589865005295 putative phosphate binding site [ion binding]; other site 589865005296 Protein of unknown function (DUF330); Region: DUF330; cl01135 589865005297 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 589865005298 mce related protein; Region: MCE; pfam02470 589865005299 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 589865005300 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865005301 Walker A/P-loop; other site 589865005302 ATP binding site [chemical binding]; other site 589865005303 Q-loop/lid; other site 589865005304 ABC transporter signature motif; other site 589865005305 Walker B; other site 589865005306 D-loop; other site 589865005307 H-loop/switch region; other site 589865005308 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 589865005309 Permease; Region: Permease; pfam02405 589865005310 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865005311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865005312 active site 589865005313 phosphorylation site [posttranslational modification] 589865005314 intermolecular recognition site; other site 589865005315 dimerization interface [polypeptide binding]; other site 589865005316 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865005317 PAS domain; Region: PAS_9; pfam13426 589865005318 putative active site [active] 589865005319 heme pocket [chemical binding]; other site 589865005320 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 589865005321 dimer interface [polypeptide binding]; other site 589865005322 phosphorylation site [posttranslational modification] 589865005323 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865005324 ATP binding site [chemical binding]; other site 589865005325 Mg2+ binding site [ion binding]; other site 589865005326 G-X-G motif; other site 589865005327 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865005328 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865005329 active site 589865005330 phosphorylation site [posttranslational modification] 589865005331 intermolecular recognition site; other site 589865005332 dimerization interface [polypeptide binding]; other site 589865005333 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 589865005334 ATP-grasp domain; Region: ATP-grasp; pfam02222 589865005335 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 589865005336 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865005337 Zn2+ binding site [ion binding]; other site 589865005338 Mg2+ binding site [ion binding]; other site 589865005339 Hemerythrin; Region: Hemerythrin; cd12107 589865005340 Fe binding site [ion binding]; other site 589865005341 adenylate kinase; Provisional; Region: PRK14529 589865005342 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 589865005343 AMP-binding site [chemical binding]; other site 589865005344 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 589865005345 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 589865005346 nudix motif; other site 589865005347 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 589865005348 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 589865005349 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865005350 ATP binding site [chemical binding]; other site 589865005351 Mg2+ binding site [ion binding]; other site 589865005352 G-X-G motif; other site 589865005353 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 589865005354 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865005355 active site 589865005356 phosphorylation site [posttranslational modification] 589865005357 intermolecular recognition site; other site 589865005358 dimerization interface [polypeptide binding]; other site 589865005359 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865005360 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 589865005361 catalytic core [active] 589865005362 cobalamin synthase; Reviewed; Region: cobS; PRK00235 589865005363 Fic family protein [Function unknown]; Region: COG3177 589865005364 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 589865005365 Fic/DOC family; Region: Fic; pfam02661 589865005366 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; cl17393 589865005367 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 589865005368 Integrase core domain; Region: rve; pfam00665 589865005369 transposase; Provisional; Region: PRK06526 589865005370 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 589865005371 Walker A motif; other site 589865005372 ATP binding site [chemical binding]; other site 589865005373 Walker B motif; other site 589865005374 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 589865005375 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 589865005376 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 589865005377 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cd09735 589865005378 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 589865005379 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 589865005380 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-F; cd09718 589865005381 BRO family, N-terminal domain; Region: Bro-N; smart01040 589865005382 Predicted transcriptional regulator [Transcription]; Region: COG2378 589865005383 WYL domain; Region: WYL; pfam13280 589865005384 Major Facilitator Superfamily; Region: MFS_1; pfam07690 589865005385 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 589865005386 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 589865005387 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 589865005388 catalytic residue [active] 589865005389 biotin synthase; Region: bioB; TIGR00433 589865005390 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 589865005391 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 589865005392 active site 589865005393 NTP binding site [chemical binding]; other site 589865005394 metal binding triad [ion binding]; metal-binding site 589865005395 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 589865005396 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 589865005397 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 589865005398 FMN binding site [chemical binding]; other site 589865005399 substrate binding site [chemical binding]; other site 589865005400 putative catalytic residue [active] 589865005401 Response regulator receiver domain; Region: Response_reg; pfam00072 589865005402 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865005403 active site 589865005404 phosphorylation site [posttranslational modification] 589865005405 intermolecular recognition site; other site 589865005406 dimerization interface [polypeptide binding]; other site 589865005407 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865005408 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865005409 metal binding site [ion binding]; metal-binding site 589865005410 active site 589865005411 I-site; other site 589865005412 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 589865005413 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 589865005414 RNA binding site [nucleotide binding]; other site 589865005415 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 589865005416 RNA binding site [nucleotide binding]; other site 589865005417 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 589865005418 RNA binding site [nucleotide binding]; other site 589865005419 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 589865005420 RNA binding site [nucleotide binding]; other site 589865005421 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 589865005422 RNA binding site [nucleotide binding]; other site 589865005423 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 589865005424 RNA binding site [nucleotide binding]; other site 589865005425 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 589865005426 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 589865005427 oligomer interface [polypeptide binding]; other site 589865005428 tandem repeat interface [polypeptide binding]; other site 589865005429 active site residues [active] 589865005430 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 589865005431 IHF - DNA interface [nucleotide binding]; other site 589865005432 IHF dimer interface [polypeptide binding]; other site 589865005433 tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family; Region: TIGR00057 589865005434 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 589865005435 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 589865005436 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 589865005437 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 589865005438 active site 589865005439 GMP synthase; Reviewed; Region: guaA; PRK00074 589865005440 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 589865005441 AMP/PPi binding site [chemical binding]; other site 589865005442 candidate oxyanion hole; other site 589865005443 catalytic triad [active] 589865005444 potential glutamine specificity residues [chemical binding]; other site 589865005445 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 589865005446 ATP Binding subdomain [chemical binding]; other site 589865005447 Ligand Binding sites [chemical binding]; other site 589865005448 Dimerization subdomain; other site 589865005449 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 589865005450 GAF domain; Region: GAF; pfam01590 589865005451 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865005452 ATP binding site [chemical binding]; other site 589865005453 Mg2+ binding site [ion binding]; other site 589865005454 G-X-G motif; other site 589865005455 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 589865005456 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865005457 active site 589865005458 phosphorylation site [posttranslational modification] 589865005459 intermolecular recognition site; other site 589865005460 dimerization interface [polypeptide binding]; other site 589865005461 TPR repeat; Region: TPR_11; pfam13414 589865005462 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 589865005463 binding surface 589865005464 TPR motif; other site 589865005465 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 589865005466 binding surface 589865005467 TPR motif; other site 589865005468 TPR repeat; Region: TPR_11; pfam13414 589865005469 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 589865005470 Colicin V production protein; Region: Colicin_V; pfam02674 589865005471 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 589865005472 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 589865005473 ligand binding site [chemical binding]; other site 589865005474 flexible hinge region; other site 589865005475 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 589865005476 putative switch regulator; other site 589865005477 non-specific DNA interactions [nucleotide binding]; other site 589865005478 DNA binding site [nucleotide binding] 589865005479 sequence specific DNA binding site [nucleotide binding]; other site 589865005480 putative cAMP binding site [chemical binding]; other site 589865005481 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 589865005482 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 589865005483 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 589865005484 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 589865005485 minor groove reading motif; other site 589865005486 helix-hairpin-helix signature motif; other site 589865005487 substrate binding pocket [chemical binding]; other site 589865005488 active site 589865005489 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 589865005490 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 589865005491 N-terminal plug; other site 589865005492 ligand-binding site [chemical binding]; other site 589865005493 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 589865005494 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 589865005495 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 589865005496 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 589865005497 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 589865005498 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 589865005499 cobalamin binding residues [chemical binding]; other site 589865005500 putative BtuC binding residues; other site 589865005501 dimer interface [polypeptide binding]; other site 589865005502 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 589865005503 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 589865005504 ABC-ATPase subunit interface; other site 589865005505 dimer interface [polypeptide binding]; other site 589865005506 putative PBP binding regions; other site 589865005507 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 589865005508 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 589865005509 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 589865005510 ATP cone domain; Region: ATP-cone; pfam03477 589865005511 Class III ribonucleotide reductase; Region: RNR_III; cd01675 589865005512 effector binding site; other site 589865005513 active site 589865005514 Zn binding site [ion binding]; other site 589865005515 glycine loop; other site 589865005516 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 589865005517 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 589865005518 FeS/SAM binding site; other site 589865005519 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 589865005520 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 589865005521 Walker A/P-loop; other site 589865005522 ATP binding site [chemical binding]; other site 589865005523 Q-loop/lid; other site 589865005524 ABC transporter signature motif; other site 589865005525 Walker B; other site 589865005526 D-loop; other site 589865005527 H-loop/switch region; other site 589865005528 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 589865005529 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 589865005530 dimer interface [polypeptide binding]; other site 589865005531 conserved gate region; other site 589865005532 putative PBP binding loops; other site 589865005533 ABC-ATPase subunit interface; other site 589865005534 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 589865005535 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 589865005536 dimer interface [polypeptide binding]; other site 589865005537 conserved gate region; other site 589865005538 putative PBP binding loops; other site 589865005539 ABC-ATPase subunit interface; other site 589865005540 PBP superfamily domain; Region: PBP_like_2; cl17296 589865005541 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 589865005542 PAS domain; Region: PAS; smart00091 589865005543 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 589865005544 dimer interface [polypeptide binding]; other site 589865005545 phosphorylation site [posttranslational modification] 589865005546 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865005547 ATP binding site [chemical binding]; other site 589865005548 Mg2+ binding site [ion binding]; other site 589865005549 G-X-G motif; other site 589865005550 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 589865005551 PhoU domain; Region: PhoU; pfam01895 589865005552 PhoU domain; Region: PhoU; pfam01895 589865005553 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 589865005554 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865005555 active site 589865005556 phosphorylation site [posttranslational modification] 589865005557 intermolecular recognition site; other site 589865005558 dimerization interface [polypeptide binding]; other site 589865005559 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 589865005560 DNA binding site [nucleotide binding] 589865005561 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 589865005562 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 589865005563 Walker A/P-loop; other site 589865005564 ATP binding site [chemical binding]; other site 589865005565 Q-loop/lid; other site 589865005566 ABC transporter signature motif; other site 589865005567 Walker B; other site 589865005568 D-loop; other site 589865005569 H-loop/switch region; other site 589865005570 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 589865005571 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 589865005572 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 589865005573 Walker A/P-loop; other site 589865005574 ATP binding site [chemical binding]; other site 589865005575 Q-loop/lid; other site 589865005576 ABC transporter signature motif; other site 589865005577 Walker B; other site 589865005578 D-loop; other site 589865005579 H-loop/switch region; other site 589865005580 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 589865005581 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 589865005582 ABC-ATPase subunit interface; other site 589865005583 putative PBP binding loops; other site 589865005584 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 589865005585 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 589865005586 dimer interface [polypeptide binding]; other site 589865005587 conserved gate region; other site 589865005588 putative PBP binding loops; other site 589865005589 ABC-ATPase subunit interface; other site 589865005590 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 589865005591 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 589865005592 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 589865005593 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 589865005594 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 589865005595 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 589865005596 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 589865005597 active site 589865005598 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 589865005599 active site 589865005600 N-terminal domain interface [polypeptide binding]; other site 589865005601 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 589865005602 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 589865005603 ABC-ATPase subunit interface; other site 589865005604 dimer interface [polypeptide binding]; other site 589865005605 putative PBP binding regions; other site 589865005606 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 589865005607 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 589865005608 Walker A/P-loop; other site 589865005609 ATP binding site [chemical binding]; other site 589865005610 Q-loop/lid; other site 589865005611 ABC transporter signature motif; other site 589865005612 Walker B; other site 589865005613 D-loop; other site 589865005614 H-loop/switch region; other site 589865005615 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 589865005616 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 589865005617 intersubunit interface [polypeptide binding]; other site 589865005618 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 589865005619 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 589865005620 catalytic triad [active] 589865005621 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 589865005622 Precorrin-8X methylmutase; Region: CbiC; pfam02570 589865005623 CbiD; Region: CbiD; cl00828 589865005624 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 589865005625 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 589865005626 active site 589865005627 putative homodimer interface [polypeptide binding]; other site 589865005628 SAM binding site [chemical binding]; other site 589865005629 cobalt-precorrin-6Y C(15)-methyltransferase; Provisional; Region: cbiT; PRK00377 589865005630 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 589865005631 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 589865005632 active site 589865005633 SAM binding site [chemical binding]; other site 589865005634 homodimer interface [polypeptide binding]; other site 589865005635 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 589865005636 active site 589865005637 SAM binding site [chemical binding]; other site 589865005638 homodimer interface [polypeptide binding]; other site 589865005639 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 589865005640 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 589865005641 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 589865005642 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 589865005643 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 589865005644 active site 589865005645 SAM binding site [chemical binding]; other site 589865005646 homodimer interface [polypeptide binding]; other site 589865005647 cobyric acid synthase; Provisional; Region: PRK00784 589865005648 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 589865005649 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 589865005650 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 589865005651 catalytic triad [active] 589865005652 CobD/Cbib protein; Region: CobD_Cbib; cl00561 589865005653 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 589865005654 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 589865005655 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 589865005656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865005657 homodimer interface [polypeptide binding]; other site 589865005658 catalytic residue [active] 589865005659 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 589865005660 Active_site [active] 589865005661 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865005662 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865005663 metal binding site [ion binding]; metal-binding site 589865005664 active site 589865005665 I-site; other site 589865005666 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 589865005667 hypothetical protein; Provisional; Region: PRK09256 589865005668 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 589865005669 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 589865005670 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 589865005671 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 589865005672 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 589865005673 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 589865005674 Divergent AAA domain; Region: AAA_4; pfam04326 589865005675 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 589865005676 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 589865005677 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 589865005678 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 589865005679 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 589865005680 DNA binding site [nucleotide binding] 589865005681 catalytic residue [active] 589865005682 H2TH interface [polypeptide binding]; other site 589865005683 putative catalytic residues [active] 589865005684 turnover-facilitating residue; other site 589865005685 intercalation triad [nucleotide binding]; other site 589865005686 8OG recognition residue [nucleotide binding]; other site 589865005687 putative reading head residues; other site 589865005688 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 589865005689 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 589865005690 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 589865005691 HlyD family secretion protein; Region: HlyD_3; pfam13437 589865005692 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 589865005693 Predicted membrane protein [Function unknown]; Region: COG2119 589865005694 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 589865005695 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 589865005696 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 589865005697 dimerization interface [polypeptide binding]; other site 589865005698 putative DNA binding site [nucleotide binding]; other site 589865005699 putative Zn2+ binding site [ion binding]; other site 589865005700 DsrE/DsrF-like family; Region: DrsE; pfam02635 589865005701 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 589865005702 active site residue [active] 589865005703 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 589865005704 active site residue [active] 589865005705 Predicted transcriptional regulators [Transcription]; Region: COG1695 589865005706 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 589865005707 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 589865005708 dimer interface [polypeptide binding]; other site 589865005709 substrate binding site [chemical binding]; other site 589865005710 ATP binding site [chemical binding]; other site 589865005711 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 589865005712 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865005713 active site 589865005714 phosphorylation site [posttranslational modification] 589865005715 intermolecular recognition site; other site 589865005716 dimerization interface [polypeptide binding]; other site 589865005717 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 589865005718 DNA binding site [nucleotide binding] 589865005719 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865005720 Response regulator receiver domain; Region: Response_reg; pfam00072 589865005721 active site 589865005722 phosphorylation site [posttranslational modification] 589865005723 intermolecular recognition site; other site 589865005724 dimerization interface [polypeptide binding]; other site 589865005725 PilZ domain; Region: PilZ; pfam07238 589865005726 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 589865005727 dimer interface [polypeptide binding]; other site 589865005728 phosphorylation site [posttranslational modification] 589865005729 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865005730 ATP binding site [chemical binding]; other site 589865005731 Mg2+ binding site [ion binding]; other site 589865005732 G-X-G motif; other site 589865005733 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 589865005734 dimerization interface [polypeptide binding]; other site 589865005735 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 589865005736 GAF domain; Region: GAF_3; pfam13492 589865005737 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865005738 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865005739 metal binding site [ion binding]; metal-binding site 589865005740 active site 589865005741 I-site; other site 589865005742 Response regulator receiver domain; Region: Response_reg; pfam00072 589865005743 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865005744 active site 589865005745 phosphorylation site [posttranslational modification] 589865005746 intermolecular recognition site; other site 589865005747 dimerization interface [polypeptide binding]; other site 589865005748 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865005749 PAS domain; Region: PAS_9; pfam13426 589865005750 putative active site [active] 589865005751 heme pocket [chemical binding]; other site 589865005752 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865005753 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865005754 metal binding site [ion binding]; metal-binding site 589865005755 active site 589865005756 I-site; other site 589865005757 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 589865005758 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 589865005759 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865005760 ATP binding site [chemical binding]; other site 589865005761 Mg2+ binding site [ion binding]; other site 589865005762 G-X-G motif; other site 589865005763 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865005764 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 589865005765 active site 589865005766 phosphorylation site [posttranslational modification] 589865005767 intermolecular recognition site; other site 589865005768 dimerization interface [polypeptide binding]; other site 589865005769 PAS fold; Region: PAS_3; pfam08447 589865005770 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865005771 putative active site [active] 589865005772 heme pocket [chemical binding]; other site 589865005773 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 589865005774 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 589865005775 dimer interface [polypeptide binding]; other site 589865005776 phosphorylation site [posttranslational modification] 589865005777 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865005778 ATP binding site [chemical binding]; other site 589865005779 Mg2+ binding site [ion binding]; other site 589865005780 G-X-G motif; other site 589865005781 Response regulator receiver domain; Region: Response_reg; pfam00072 589865005782 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865005783 active site 589865005784 phosphorylation site [posttranslational modification] 589865005785 intermolecular recognition site; other site 589865005786 dimerization interface [polypeptide binding]; other site 589865005787 HDOD domain; Region: HDOD; pfam08668 589865005788 GAF domain; Region: GAF; pfam01590 589865005789 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 589865005790 PAS fold; Region: PAS_4; pfam08448 589865005791 putative active site [active] 589865005792 heme pocket [chemical binding]; other site 589865005793 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865005794 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865005795 metal binding site [ion binding]; metal-binding site 589865005796 active site 589865005797 I-site; other site 589865005798 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 589865005799 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865005800 Zn2+ binding site [ion binding]; other site 589865005801 Mg2+ binding site [ion binding]; other site 589865005802 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 589865005803 putative catalytic site [active] 589865005804 putative metal binding site [ion binding]; other site 589865005805 putative phosphate binding site [ion binding]; other site 589865005806 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 589865005807 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 589865005808 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 589865005809 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 589865005810 putative active site [active] 589865005811 putative metal binding site [ion binding]; other site 589865005812 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 589865005813 4Fe-4S binding domain; Region: Fer4; cl02805 589865005814 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 589865005815 putative FMN binding site [chemical binding]; other site 589865005816 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 589865005817 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 589865005818 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 589865005819 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 589865005820 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 589865005821 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 589865005822 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 589865005823 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 589865005824 putative active site [active] 589865005825 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 589865005826 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 589865005827 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 589865005828 active site 589865005829 tetramer interface [polypeptide binding]; other site 589865005830 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 589865005831 active site 589865005832 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 589865005833 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 589865005834 catalytic residues [active] 589865005835 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 589865005836 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 589865005837 Ligand Binding Site [chemical binding]; other site 589865005838 Nif-specific regulatory protein; Region: nifA; TIGR01817 589865005839 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 589865005840 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 589865005841 Walker A motif; other site 589865005842 ATP binding site [chemical binding]; other site 589865005843 Walker B motif; other site 589865005844 arginine finger; other site 589865005845 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865005846 Protein of unknown function DUF116; Region: DUF116; pfam01976 589865005847 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 589865005848 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 589865005849 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 589865005850 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 589865005851 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 589865005852 active site 589865005853 catalytic site [active] 589865005854 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 589865005855 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 589865005856 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 589865005857 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 589865005858 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 589865005859 Transglycosylase SLT domain; Region: SLT_2; pfam13406 589865005860 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 589865005861 N-acetyl-D-glucosamine binding site [chemical binding]; other site 589865005862 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 589865005863 HlyD family secretion protein; Region: HlyD_3; pfam13437 589865005864 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 589865005865 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 589865005866 FtsX-like permease family; Region: FtsX; pfam02687 589865005867 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 589865005868 FtsX-like permease family; Region: FtsX; pfam02687 589865005869 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 589865005870 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 589865005871 Walker A/P-loop; other site 589865005872 ATP binding site [chemical binding]; other site 589865005873 Q-loop/lid; other site 589865005874 ABC transporter signature motif; other site 589865005875 Walker B; other site 589865005876 D-loop; other site 589865005877 H-loop/switch region; other site 589865005878 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 589865005879 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 589865005880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865005881 homodimer interface [polypeptide binding]; other site 589865005882 catalytic residue [active] 589865005883 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 589865005884 dimer interface [polypeptide binding]; other site 589865005885 Citrate synthase; Region: Citrate_synt; pfam00285 589865005886 active site 589865005887 citrylCoA binding site [chemical binding]; other site 589865005888 NADH binding [chemical binding]; other site 589865005889 cationic pore residues; other site 589865005890 oxalacetate/citrate binding site [chemical binding]; other site 589865005891 coenzyme A binding site [chemical binding]; other site 589865005892 catalytic triad [active] 589865005893 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 589865005894 thiamine phosphate binding site [chemical binding]; other site 589865005895 active site 589865005896 pyrophosphate binding site [ion binding]; other site 589865005897 HflC protein; Region: hflC; TIGR01932 589865005898 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 589865005899 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 589865005900 HflK protein; Region: hflK; TIGR01933 589865005901 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 589865005902 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 589865005903 active site 589865005904 Riboflavin kinase; Region: Flavokinase; pfam01687 589865005905 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 589865005906 heterotetramer interface [polypeptide binding]; other site 589865005907 active site pocket [active] 589865005908 cleavage site 589865005909 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 589865005910 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865005911 dimer interface [polypeptide binding]; other site 589865005912 putative CheW interface [polypeptide binding]; other site 589865005913 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 589865005914 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 589865005915 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 589865005916 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 589865005917 nucleotide binding region [chemical binding]; other site 589865005918 ATP-binding site [chemical binding]; other site 589865005919 SEC-C motif; Region: SEC-C; pfam02810 589865005920 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 589865005921 Coenzyme A binding pocket [chemical binding]; other site 589865005922 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 589865005923 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 589865005924 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 589865005925 active site 589865005926 HIGH motif; other site 589865005927 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 589865005928 KMSK motif region; other site 589865005929 tRNA binding surface [nucleotide binding]; other site 589865005930 DALR anticodon binding domain; Region: DALR_1; smart00836 589865005931 anticodon binding site; other site 589865005932 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 589865005933 alanine racemase; Reviewed; Region: alr; PRK00053 589865005934 active site 589865005935 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 589865005936 dimer interface [polypeptide binding]; other site 589865005937 substrate binding site [chemical binding]; other site 589865005938 catalytic residues [active] 589865005939 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 589865005940 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 589865005941 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 589865005942 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 589865005943 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 589865005944 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 589865005945 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 589865005946 catalytic triad [active] 589865005947 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 589865005948 TPR motif; other site 589865005949 Tetratricopeptide repeat; Region: TPR_12; pfam13424 589865005950 binding surface 589865005951 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 589865005952 binding surface 589865005953 TPR motif; other site 589865005954 Tetratricopeptide repeat; Region: TPR_12; pfam13424 589865005955 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 589865005956 binding surface 589865005957 TPR motif; other site 589865005958 HEAT-like repeat; Region: HEAT_EZ; pfam13513 589865005959 Flagellin N-methylase; Region: FliB; cl00497 589865005960 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 589865005961 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 589865005962 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 589865005963 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 589865005964 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 589865005965 DNA binding site [nucleotide binding] 589865005966 active site 589865005967 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 589865005968 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865005969 active site 589865005970 phosphorylation site [posttranslational modification] 589865005971 intermolecular recognition site; other site 589865005972 dimerization interface [polypeptide binding]; other site 589865005973 CheB methylesterase; Region: CheB_methylest; pfam01339 589865005974 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 589865005975 Response regulator receiver domain; Region: Response_reg; pfam00072 589865005976 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865005977 active site 589865005978 phosphorylation site [posttranslational modification] 589865005979 intermolecular recognition site; other site 589865005980 dimerization interface [polypeptide binding]; other site 589865005981 HDOD domain; Region: HDOD; pfam08668 589865005982 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865005983 Zn2+ binding site [ion binding]; other site 589865005984 Mg2+ binding site [ion binding]; other site 589865005985 CheD chemotactic sensory transduction; Region: CheD; cl00810 589865005986 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 589865005987 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 589865005988 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 589865005989 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 589865005990 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 589865005991 putative binding surface; other site 589865005992 active site 589865005993 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 589865005994 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 589865005995 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865005996 ATP binding site [chemical binding]; other site 589865005997 G-X-G motif; other site 589865005998 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 589865005999 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 589865006000 Transglycosylase; Region: Transgly; pfam00912 589865006001 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 589865006002 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 589865006003 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 589865006004 N-acetyl-D-glucosamine binding site [chemical binding]; other site 589865006005 catalytic residue [active] 589865006006 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 589865006007 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 589865006008 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 589865006009 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 589865006010 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 589865006011 classical (c) SDRs; Region: SDR_c; cd05233 589865006012 NAD(P) binding site [chemical binding]; other site 589865006013 active site 589865006014 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 589865006015 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 589865006016 FeS/SAM binding site; other site 589865006017 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 589865006018 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 589865006019 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 589865006020 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 589865006021 GDP-binding site [chemical binding]; other site 589865006022 ACT binding site; other site 589865006023 IMP binding site; other site 589865006024 Predicted integral membrane protein [Function unknown]; Region: COG5616 589865006025 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 589865006026 chaperone protein DnaJ; Provisional; Region: PRK10767 589865006027 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 589865006028 HSP70 interaction site [polypeptide binding]; other site 589865006029 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 589865006030 substrate binding site [polypeptide binding]; other site 589865006031 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 589865006032 Zn binding sites [ion binding]; other site 589865006033 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 589865006034 dimer interface [polypeptide binding]; other site 589865006035 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 589865006036 trimer interface [polypeptide binding]; other site 589865006037 dimer interface [polypeptide binding]; other site 589865006038 putative active site [active] 589865006039 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 589865006040 ADP-glucose phosphorylase; Region: PLN02643 589865006041 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 589865006042 nucleotide binding site/active site [active] 589865006043 HIT family signature motif; other site 589865006044 catalytic residue [active] 589865006045 Response regulator receiver domain; Region: Response_reg; pfam00072 589865006046 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865006047 active site 589865006048 phosphorylation site [posttranslational modification] 589865006049 intermolecular recognition site; other site 589865006050 dimerization interface [polypeptide binding]; other site 589865006051 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 589865006052 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 589865006053 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 589865006054 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 589865006055 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 589865006056 Beta-Casp domain; Region: Beta-Casp; smart01027 589865006057 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 589865006058 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 589865006059 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 589865006060 DNA binding residues [nucleotide binding] 589865006061 Maf-like protein; Region: Maf; pfam02545 589865006062 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 589865006063 active site 589865006064 dimer interface [polypeptide binding]; other site 589865006065 aconitate hydratase; Validated; Region: PRK07229 589865006066 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 589865006067 substrate binding site [chemical binding]; other site 589865006068 ligand binding site [chemical binding]; other site 589865006069 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course...; Region: AcnA_Bact_Swivel; cd01579 589865006070 substrate binding site [chemical binding]; other site 589865006071 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 589865006072 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 589865006073 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 589865006074 flagellar motor switch protein; Validated; Region: fliN; PRK05698 589865006075 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 589865006076 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 589865006077 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 589865006078 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 589865006079 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 589865006080 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 589865006081 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 589865006082 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 589865006083 FHIPEP family; Region: FHIPEP; pfam00771 589865006084 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 589865006085 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 589865006086 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 589865006087 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 589865006088 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 589865006089 P-loop; other site 589865006090 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 589865006091 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 589865006092 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 589865006093 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 589865006094 DNA binding residues [nucleotide binding] 589865006095 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 589865006096 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865006097 active site 589865006098 phosphorylation site [posttranslational modification] 589865006099 intermolecular recognition site; other site 589865006100 dimerization interface [polypeptide binding]; other site 589865006101 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 589865006102 Nitrogen regulatory protein P-II; Region: P-II; smart00938 589865006103 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 589865006104 phosphomannomutase CpsG; Provisional; Region: PRK15414 589865006105 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 589865006106 active site 589865006107 substrate binding site [chemical binding]; other site 589865006108 metal binding site [ion binding]; metal-binding site 589865006109 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 589865006110 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 589865006111 Substrate binding site; other site 589865006112 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 589865006113 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 589865006114 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 589865006115 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 589865006116 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 589865006117 Walker A motif; other site 589865006118 ATP binding site [chemical binding]; other site 589865006119 Walker B motif; other site 589865006120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 589865006121 Integrase core domain; Region: rve; pfam00665 589865006122 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 589865006123 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 589865006124 Chain length determinant protein; Region: Wzz; cl15801 589865006125 hypothetical protein; Provisional; Region: PHA03011 589865006126 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 589865006127 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 589865006128 Walker A motif; other site 589865006129 ATP binding site [chemical binding]; other site 589865006130 Walker B motif; other site 589865006131 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 589865006132 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 589865006133 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 589865006134 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 589865006135 Walker A motif; other site 589865006136 ATP binding site [chemical binding]; other site 589865006137 Walker B motif; other site 589865006138 arginine finger; other site 589865006139 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 589865006140 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 589865006141 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 589865006142 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 589865006143 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 589865006144 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 589865006145 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 589865006146 putative active site [active] 589865006147 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 589865006148 putative ADP-binding pocket [chemical binding]; other site 589865006149 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 589865006150 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 589865006151 trimer interface [polypeptide binding]; other site 589865006152 active site 589865006153 substrate binding site [chemical binding]; other site 589865006154 CoA binding site [chemical binding]; other site 589865006155 NAD synthetase; Reviewed; Region: nadE; PRK00876 589865006156 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 589865006157 Ligand Binding Site [chemical binding]; other site 589865006158 Phosphopantetheine attachment site; Region: PP-binding; cl09936 589865006159 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 589865006160 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 589865006161 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 589865006162 acyl-activating enzyme (AAE) consensus motif; other site 589865006163 putative AMP binding site [chemical binding]; other site 589865006164 putative active site [active] 589865006165 putative CoA binding site [chemical binding]; other site 589865006166 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 589865006167 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 589865006168 active site 589865006169 dimer interface [polypeptide binding]; other site 589865006170 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 589865006171 Ligand Binding Site [chemical binding]; other site 589865006172 Molecular Tunnel; other site 589865006173 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 589865006174 trimer interface [polypeptide binding]; other site 589865006175 active site 589865006176 substrate binding site [chemical binding]; other site 589865006177 CoA binding site [chemical binding]; other site 589865006178 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 589865006179 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 589865006180 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 589865006181 active site 589865006182 Transposase, Mutator family; Region: Transposase_mut; pfam00872 589865006183 MULE transposase domain; Region: MULE; pfam10551 589865006184 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 589865006185 short chain dehydrogenase; Provisional; Region: PRK07102 589865006186 NAD(P) binding site [chemical binding]; other site 589865006187 active site 589865006188 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 589865006189 FAD binding domain; Region: FAD_binding_4; pfam01565 589865006190 GtrA-like protein; Region: GtrA; pfam04138 589865006191 hypothetical protein; Validated; Region: PRK08238 589865006192 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 589865006193 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 589865006194 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 589865006195 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 589865006196 active site 589865006197 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 589865006198 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 589865006199 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 589865006200 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 589865006201 Probable Catalytic site; other site 589865006202 metal-binding site 589865006203 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 589865006204 FemAB family; Region: FemAB; pfam02388 589865006205 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 589865006206 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 589865006207 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 589865006208 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 589865006209 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 589865006210 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 589865006211 inhibitor-cofactor binding pocket; inhibition site 589865006212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865006213 catalytic residue [active] 589865006214 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 589865006215 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 589865006216 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 589865006217 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 589865006218 Ligand Binding Site [chemical binding]; other site 589865006219 Putative capsular polysaccharide synthesis protein; Region: NKWYS; pfam10364 589865006220 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 589865006221 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 589865006222 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 589865006223 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 589865006224 CoA binding domain; Region: CoA_binding; cl17356 589865006225 Bacterial sugar transferase; Region: Bac_transf; pfam02397 589865006226 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865006227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865006228 active site 589865006229 phosphorylation site [posttranslational modification] 589865006230 intermolecular recognition site; other site 589865006231 dimerization interface [polypeptide binding]; other site 589865006232 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 589865006233 Walker A motif; other site 589865006234 ATP binding site [chemical binding]; other site 589865006235 Walker B motif; other site 589865006236 arginine finger; other site 589865006237 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 589865006238 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 589865006239 Sel1-like repeats; Region: SEL1; smart00671 589865006240 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 589865006241 HAMP domain; Region: HAMP; pfam00672 589865006242 dimerization interface [polypeptide binding]; other site 589865006243 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 589865006244 dimer interface [polypeptide binding]; other site 589865006245 phosphorylation site [posttranslational modification] 589865006246 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865006247 ATP binding site [chemical binding]; other site 589865006248 Mg2+ binding site [ion binding]; other site 589865006249 G-X-G motif; other site 589865006250 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 589865006251 binding surface 589865006252 TPR repeat; Region: TPR_11; pfam13414 589865006253 TPR motif; other site 589865006254 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 589865006255 binding surface 589865006256 TPR motif; other site 589865006257 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 589865006258 TPR motif; other site 589865006259 binding surface 589865006260 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 589865006261 TPR motif; other site 589865006262 binding surface 589865006263 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 589865006264 binding surface 589865006265 TPR motif; other site 589865006266 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 589865006267 binding surface 589865006268 Tetratricopeptide repeat; Region: TPR_16; pfam13432 589865006269 TPR motif; other site 589865006270 TPR repeat; Region: TPR_11; pfam13414 589865006271 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 589865006272 TPR motif; other site 589865006273 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 589865006274 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 589865006275 active site 589865006276 metal binding site [ion binding]; metal-binding site 589865006277 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 589865006278 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 589865006279 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865006280 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865006281 metal binding site [ion binding]; metal-binding site 589865006282 active site 589865006283 I-site; other site 589865006284 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 589865006285 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 589865006286 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 589865006287 substrate binding site; other site 589865006288 tetramer interface; other site 589865006289 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 589865006290 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 589865006291 NADP binding site [chemical binding]; other site 589865006292 active site 589865006293 putative substrate binding site [chemical binding]; other site 589865006294 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 589865006295 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 589865006296 NAD binding site [chemical binding]; other site 589865006297 substrate binding site [chemical binding]; other site 589865006298 homodimer interface [polypeptide binding]; other site 589865006299 active site 589865006300 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 589865006301 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 589865006302 putative NAD(P) binding site [chemical binding]; other site 589865006303 active site 589865006304 putative substrate binding site [chemical binding]; other site 589865006305 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 589865006306 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 589865006307 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 589865006308 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 589865006309 UDP-glucose 4-epimerase; Region: PLN02240 589865006310 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 589865006311 NAD binding site [chemical binding]; other site 589865006312 homodimer interface [polypeptide binding]; other site 589865006313 active site 589865006314 substrate binding site [chemical binding]; other site 589865006315 Bacterial sugar transferase; Region: Bac_transf; cl00939 589865006316 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 589865006317 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 589865006318 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 589865006319 NAD(P) binding site [chemical binding]; other site 589865006320 homodimer interface [polypeptide binding]; other site 589865006321 substrate binding site [chemical binding]; other site 589865006322 active site 589865006323 Transposase IS200 like; Region: Y1_Tnp; pfam01797 589865006324 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 589865006325 DnaA box-binding interface [nucleotide binding]; other site 589865006326 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 589865006327 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 589865006328 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 589865006329 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 589865006330 AAA domain; Region: AAA_14; pfam13173 589865006331 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 589865006332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 589865006333 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 589865006334 NAD(P) binding site [chemical binding]; other site 589865006335 active site 589865006336 LicD family; Region: LicD; pfam04991 589865006337 LicD family; Region: LicD; pfam04991 589865006338 NRDE-2, necessary for RNA interference; Region: NRDE-2; pfam08424 589865006339 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 589865006340 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 589865006341 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 589865006342 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 589865006343 Walker A motif; other site 589865006344 ATP binding site [chemical binding]; other site 589865006345 Walker B motif; other site 589865006346 arginine finger; other site 589865006347 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 589865006348 Predicted transcriptional regulator [Transcription]; Region: COG3905 589865006349 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 589865006350 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 589865006351 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 589865006352 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 589865006353 Walker A motif; other site 589865006354 ATP binding site [chemical binding]; other site 589865006355 Walker B motif; other site 589865006356 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 589865006357 Nuclease-related domain; Region: NERD; pfam08378 589865006358 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 589865006359 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 589865006360 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 589865006361 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 589865006362 substrate binding site; other site 589865006363 tetramer interface; other site 589865006364 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 589865006365 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 589865006366 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 589865006367 NADP binding site [chemical binding]; other site 589865006368 active site 589865006369 putative substrate binding site [chemical binding]; other site 589865006370 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 589865006371 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 589865006372 NAD binding site [chemical binding]; other site 589865006373 substrate binding site [chemical binding]; other site 589865006374 homodimer interface [polypeptide binding]; other site 589865006375 active site 589865006376 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 589865006377 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 589865006378 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 589865006379 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 589865006380 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 589865006381 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 589865006382 Substrate binding site; other site 589865006383 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 589865006384 potential frameshift: common BLAST hit: gi|291288467|ref|YP_003505283.1| transposase IS3/IS911 family protein 589865006385 putative transposase OrfB; Reviewed; Region: PHA02517 589865006386 HTH-like domain; Region: HTH_21; pfam13276 589865006387 Integrase core domain; Region: rve; pfam00665 589865006388 Integrase core domain; Region: rve_3; pfam13683 589865006389 Transposase; Region: HTH_Tnp_1; pfam01527 589865006390 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 589865006391 active site 589865006392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 589865006393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 589865006394 Methyltransferase domain; Region: Methyltransf_24; pfam13578 589865006395 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 589865006396 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 589865006397 TPR repeat; Region: TPR_11; pfam13414 589865006398 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 589865006399 binding surface 589865006400 TPR motif; other site 589865006401 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 589865006402 active site 589865006403 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 589865006404 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 589865006405 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 589865006406 Protein of unknown function (DUF497); Region: DUF497; pfam04365 589865006407 Helix-turn-helix domain; Region: HTH_20; pfam12840 589865006408 dimerization interface [polypeptide binding]; other site 589865006409 putative DNA binding site [nucleotide binding]; other site 589865006410 putative Zn2+ binding site [ion binding]; other site 589865006411 Fic family protein [Function unknown]; Region: COG3177 589865006412 Fic/DOC family; Region: Fic; pfam02661 589865006413 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 589865006414 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 589865006415 Protein of unknown function (DUF342); Region: DUF342; pfam03961 589865006416 Domain of unknown function (DUF955); Region: DUF955; pfam06114 589865006417 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 589865006418 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 589865006419 putative active site [active] 589865006420 metal binding site [ion binding]; metal-binding site 589865006421 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 589865006422 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 589865006423 PYR/PP interface [polypeptide binding]; other site 589865006424 dimer interface [polypeptide binding]; other site 589865006425 TPP binding site [chemical binding]; other site 589865006426 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 589865006427 TPP-binding site; other site 589865006428 cytidylyltransferase; Region: cytidylyltransferase; cd02170 589865006429 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 589865006430 active site 589865006431 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 589865006432 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 589865006433 tetramer interface [polypeptide binding]; other site 589865006434 active site 589865006435 Mg2+/Mn2+ binding site [ion binding]; other site 589865006436 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 589865006437 Domain of unknown function (DUF3368); Region: DUF3368; pfam11848 589865006438 Uncharacterized protein family (UPF0175); Region: UPF0175; pfam03683 589865006439 AAA domain; Region: AAA_14; pfam13173 589865006440 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 589865006441 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 589865006442 CHASE2 domain; Region: CHASE2; pfam05226 589865006443 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 589865006444 cyclase homology domain; Region: CHD; cd07302 589865006445 nucleotidyl binding site; other site 589865006446 metal binding site [ion binding]; metal-binding site 589865006447 dimer interface [polypeptide binding]; other site 589865006448 FecR protein; Region: FecR; pfam04773 589865006449 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 589865006450 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 589865006451 TPR motif; other site 589865006452 Tetratricopeptide repeat; Region: TPR_16; pfam13432 589865006453 binding surface 589865006454 Tetratricopeptide repeat; Region: TPR_16; pfam13432 589865006455 Protein of unknown function (DUF560); Region: DUF560; pfam04575 589865006456 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 589865006457 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 589865006458 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865006459 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865006460 metal binding site [ion binding]; metal-binding site 589865006461 active site 589865006462 I-site; other site 589865006463 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 589865006464 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 589865006465 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 589865006466 dimerization interface [polypeptide binding]; other site 589865006467 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 589865006468 dimer interface [polypeptide binding]; other site 589865006469 phosphorylation site [posttranslational modification] 589865006470 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865006471 ATP binding site [chemical binding]; other site 589865006472 Mg2+ binding site [ion binding]; other site 589865006473 G-X-G motif; other site 589865006474 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865006475 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865006476 active site 589865006477 phosphorylation site [posttranslational modification] 589865006478 intermolecular recognition site; other site 589865006479 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 589865006480 Walker A motif; other site 589865006481 ATP binding site [chemical binding]; other site 589865006482 Walker B motif; other site 589865006483 arginine finger; other site 589865006484 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865006485 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 589865006486 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 589865006487 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 589865006488 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 589865006489 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 589865006490 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 589865006491 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 589865006492 RNase E interface [polypeptide binding]; other site 589865006493 trimer interface [polypeptide binding]; other site 589865006494 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 589865006495 RNase E interface [polypeptide binding]; other site 589865006496 trimer interface [polypeptide binding]; other site 589865006497 active site 589865006498 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 589865006499 putative nucleic acid binding region [nucleotide binding]; other site 589865006500 G-X-X-G motif; other site 589865006501 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 589865006502 RNA binding site [nucleotide binding]; other site 589865006503 domain interface; other site 589865006504 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 589865006505 16S/18S rRNA binding site [nucleotide binding]; other site 589865006506 S13e-L30e interaction site [polypeptide binding]; other site 589865006507 25S rRNA binding site [nucleotide binding]; other site 589865006508 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 589865006509 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 589865006510 RNA binding site [nucleotide binding]; other site 589865006511 active site 589865006512 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 589865006513 DHH family; Region: DHH; pfam01368 589865006514 Ribosome-binding factor A; Region: RBFA; pfam02033 589865006515 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 589865006516 translation initiation factor IF-2; Region: IF-2; TIGR00487 589865006517 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 589865006518 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 589865006519 G1 box; other site 589865006520 putative GEF interaction site [polypeptide binding]; other site 589865006521 GTP/Mg2+ binding site [chemical binding]; other site 589865006522 Switch I region; other site 589865006523 G2 box; other site 589865006524 G3 box; other site 589865006525 Switch II region; other site 589865006526 G4 box; other site 589865006527 G5 box; other site 589865006528 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 589865006529 Translation-initiation factor 2; Region: IF-2; pfam11987 589865006530 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 589865006531 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 589865006532 NusA N-terminal domain; Region: NusA_N; pfam08529 589865006533 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 589865006534 RNA binding site [nucleotide binding]; other site 589865006535 homodimer interface [polypeptide binding]; other site 589865006536 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 589865006537 G-X-X-G motif; other site 589865006538 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 589865006539 G-X-X-G motif; other site 589865006540 ribosome maturation protein RimP; Reviewed; Region: PRK00092 589865006541 Sm and related proteins; Region: Sm_like; cl00259 589865006542 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 589865006543 putative oligomer interface [polypeptide binding]; other site 589865006544 putative RNA binding site [nucleotide binding]; other site 589865006545 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 589865006546 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 589865006547 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 589865006548 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 589865006549 dimerization interface [polypeptide binding]; other site 589865006550 ATP binding site [chemical binding]; other site 589865006551 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 589865006552 dimerization interface [polypeptide binding]; other site 589865006553 ATP binding site [chemical binding]; other site 589865006554 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 589865006555 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 589865006556 generic binding surface II; other site 589865006557 generic binding surface I; other site 589865006558 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 589865006559 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 589865006560 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 589865006561 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 589865006562 Walker A motif; other site 589865006563 ATP binding site [chemical binding]; other site 589865006564 Walker B motif; other site 589865006565 arginine finger; other site 589865006566 PSP1 C-terminal conserved region; Region: PSP1; cl00770 589865006567 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 589865006568 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 589865006569 active site 589865006570 HIGH motif; other site 589865006571 KMSKS motif; other site 589865006572 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 589865006573 tRNA binding surface [nucleotide binding]; other site 589865006574 anticodon binding site; other site 589865006575 YGGT family; Region: YGGT; pfam02325 589865006576 DivIVA protein; Region: DivIVA; pfam05103 589865006577 DivIVA domain; Region: DivI1A_domain; TIGR03544 589865006578 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 589865006579 MutS domain I; Region: MutS_I; pfam01624 589865006580 MutS domain II; Region: MutS_II; pfam05188 589865006581 MutS domain III; Region: MutS_III; pfam05192 589865006582 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 589865006583 Walker A/P-loop; other site 589865006584 ATP binding site [chemical binding]; other site 589865006585 Q-loop/lid; other site 589865006586 ABC transporter signature motif; other site 589865006587 Walker B; other site 589865006588 D-loop; other site 589865006589 H-loop/switch region; other site 589865006590 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 589865006591 binding surface 589865006592 TPR motif; other site 589865006593 AMIN domain; Region: AMIN; pfam11741 589865006594 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 589865006595 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 589865006596 active site 589865006597 metal binding site [ion binding]; metal-binding site 589865006598 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 589865006599 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 589865006600 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 589865006601 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 589865006602 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 589865006603 gamma subunit interface [polypeptide binding]; other site 589865006604 epsilon subunit interface [polypeptide binding]; other site 589865006605 LBP interface [polypeptide binding]; other site 589865006606 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 589865006607 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 589865006608 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 589865006609 alpha subunit interaction interface [polypeptide binding]; other site 589865006610 Walker A motif; other site 589865006611 ATP binding site [chemical binding]; other site 589865006612 Walker B motif; other site 589865006613 inhibitor binding site; inhibition site 589865006614 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 589865006615 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 589865006616 core domain interface [polypeptide binding]; other site 589865006617 delta subunit interface [polypeptide binding]; other site 589865006618 epsilon subunit interface [polypeptide binding]; other site 589865006619 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 589865006620 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 589865006621 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 589865006622 beta subunit interaction interface [polypeptide binding]; other site 589865006623 Walker A motif; other site 589865006624 ATP binding site [chemical binding]; other site 589865006625 Walker B motif; other site 589865006626 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 589865006627 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 589865006628 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 589865006629 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 589865006630 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 589865006631 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 589865006632 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 589865006633 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 589865006634 motif 1; other site 589865006635 active site 589865006636 motif 2; other site 589865006637 motif 3; other site 589865006638 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 589865006639 DHHA1 domain; Region: DHHA1; pfam02272 589865006640 recombinase A; Provisional; Region: recA; PRK09354 589865006641 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 589865006642 hexamer interface [polypeptide binding]; other site 589865006643 Walker A motif; other site 589865006644 ATP binding site [chemical binding]; other site 589865006645 Walker B motif; other site 589865006646 competence damage-inducible protein A; Provisional; Region: PRK00549 589865006647 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 589865006648 putative MPT binding site; other site 589865006649 Competence-damaged protein; Region: CinA; pfam02464 589865006650 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 589865006651 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 589865006652 CHASE2 domain; Region: CHASE2; cl01732 589865006653 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 589865006654 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 589865006655 [4Fe-4S] binding site [ion binding]; other site 589865006656 molybdopterin cofactor binding site; other site 589865006657 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 589865006658 molybdopterin cofactor binding site; other site 589865006659 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 589865006660 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 589865006661 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 589865006662 NapD protein; Region: NapD; cl01163 589865006663 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 589865006664 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 589865006665 Ligand Binding Site [chemical binding]; other site 589865006666 putative protease; Provisional; Region: PRK15452 589865006667 Peptidase family U32; Region: Peptidase_U32; pfam01136 589865006668 Preprotein translocase subunit; Region: YajC; pfam02699 589865006669 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 589865006670 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 589865006671 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 589865006672 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 589865006673 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 589865006674 active site 589865006675 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 589865006676 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 589865006677 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 589865006678 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 589865006679 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 589865006680 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 589865006681 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 589865006682 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 589865006683 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 589865006684 NADH dehydrogenase subunit 6; Region: ndhG; CHL00016 589865006685 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 589865006686 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 589865006687 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 589865006688 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 589865006689 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 589865006690 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 589865006691 NADH dehydrogenase subunit D; Validated; Region: PRK06075 589865006692 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 589865006693 NADH dehydrogenase subunit B; Validated; Region: PRK06411 589865006694 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 589865006695 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 589865006696 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 589865006697 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 589865006698 rod shape-determining protein MreB; Provisional; Region: PRK13927 589865006699 MreB and similar proteins; Region: MreB_like; cd10225 589865006700 nucleotide binding site [chemical binding]; other site 589865006701 Mg binding site [ion binding]; other site 589865006702 putative protofilament interaction site [polypeptide binding]; other site 589865006703 RodZ interaction site [polypeptide binding]; other site 589865006704 rod shape-determining protein MreC; Provisional; Region: PRK13922 589865006705 rod shape-determining protein MreC; Region: MreC; pfam04085 589865006706 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 589865006707 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 589865006708 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 589865006709 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 589865006710 Ferrochelatase; Region: Ferrochelatase; pfam00762 589865006711 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 589865006712 C-terminal domain interface [polypeptide binding]; other site 589865006713 active site 589865006714 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 589865006715 active site 589865006716 N-terminal domain interface [polypeptide binding]; other site 589865006717 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865006718 Zn2+ binding site [ion binding]; other site 589865006719 Mg2+ binding site [ion binding]; other site 589865006720 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 589865006721 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 589865006722 substrate binding site [chemical binding]; other site 589865006723 active site 589865006724 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 589865006725 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 589865006726 FeS/SAM binding site; other site 589865006727 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 589865006728 NAD synthetase; Provisional; Region: PRK13981 589865006729 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 589865006730 multimer interface [polypeptide binding]; other site 589865006731 active site 589865006732 catalytic triad [active] 589865006733 protein interface 1 [polypeptide binding]; other site 589865006734 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 589865006735 homodimer interface [polypeptide binding]; other site 589865006736 NAD binding pocket [chemical binding]; other site 589865006737 ATP binding pocket [chemical binding]; other site 589865006738 Mg binding site [ion binding]; other site 589865006739 active-site loop [active] 589865006740 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 589865006741 histidinol dehydrogenase; Region: hisD; TIGR00069 589865006742 NAD binding site [chemical binding]; other site 589865006743 dimerization interface [polypeptide binding]; other site 589865006744 product binding site; other site 589865006745 substrate binding site [chemical binding]; other site 589865006746 zinc binding site [ion binding]; other site 589865006747 catalytic residues [active] 589865006748 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 589865006749 DNA polymerase I; Provisional; Region: PRK05755 589865006750 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 589865006751 active site 589865006752 metal binding site 1 [ion binding]; metal-binding site 589865006753 putative 5' ssDNA interaction site; other site 589865006754 metal binding site 3; metal-binding site 589865006755 metal binding site 2 [ion binding]; metal-binding site 589865006756 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 589865006757 putative DNA binding site [nucleotide binding]; other site 589865006758 putative metal binding site [ion binding]; other site 589865006759 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 589865006760 active site 589865006761 catalytic site [active] 589865006762 substrate binding site [chemical binding]; other site 589865006763 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 589865006764 active site 589865006765 DNA binding site [nucleotide binding] 589865006766 catalytic site [active] 589865006767 SurA N-terminal domain; Region: SurA_N_3; cl07813 589865006768 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 589865006769 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 589865006770 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 589865006771 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865006772 Zn2+ binding site [ion binding]; other site 589865006773 Mg2+ binding site [ion binding]; other site 589865006774 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 589865006775 Major Facilitator Superfamily; Region: MFS_1; pfam07690 589865006776 putative substrate translocation pore; other site 589865006777 DNA repair protein RadA; Provisional; Region: PRK11823 589865006778 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 589865006779 Walker A motif; other site 589865006780 ATP binding site [chemical binding]; other site 589865006781 Walker B motif; other site 589865006782 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 589865006783 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 589865006784 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 589865006785 S-adenosylmethionine binding site [chemical binding]; other site 589865006786 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 589865006787 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 589865006788 FeS/SAM binding site; other site 589865006789 HemN C-terminal domain; Region: HemN_C; pfam06969 589865006790 hypothetical protein; Reviewed; Region: PRK00024 589865006791 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 589865006792 MPN+ (JAMM) motif; other site 589865006793 Zinc-binding site [ion binding]; other site 589865006794 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 589865006795 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 589865006796 GatB domain; Region: GatB_Yqey; smart00845 589865006797 Putative exonuclease, RdgC; Region: RdgC; cl01122 589865006798 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 589865006799 dimerization interface [polypeptide binding]; other site 589865006800 PAS domain S-box; Region: sensory_box; TIGR00229 589865006801 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865006802 putative active site [active] 589865006803 heme pocket [chemical binding]; other site 589865006804 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 589865006805 dimer interface [polypeptide binding]; other site 589865006806 phosphorylation site [posttranslational modification] 589865006807 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865006808 ATP binding site [chemical binding]; other site 589865006809 Mg2+ binding site [ion binding]; other site 589865006810 G-X-G motif; other site 589865006811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865006812 Response regulator receiver domain; Region: Response_reg; pfam00072 589865006813 active site 589865006814 phosphorylation site [posttranslational modification] 589865006815 intermolecular recognition site; other site 589865006816 dimerization interface [polypeptide binding]; other site 589865006817 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 589865006818 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 589865006819 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 589865006820 dimer interface [polypeptide binding]; other site 589865006821 phosphorylation site [posttranslational modification] 589865006822 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865006823 ATP binding site [chemical binding]; other site 589865006824 Mg2+ binding site [ion binding]; other site 589865006825 G-X-G motif; other site 589865006826 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 589865006827 nucleotide binding site/active site [active] 589865006828 HIT family signature motif; other site 589865006829 catalytic residue [active] 589865006830 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 589865006831 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 589865006832 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 589865006833 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 589865006834 GTP binding site; other site 589865006835 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 589865006836 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 589865006837 dimer interface [polypeptide binding]; other site 589865006838 putative functional site; other site 589865006839 putative MPT binding site; other site 589865006840 seryl-tRNA synthetase; Provisional; Region: PRK05431 589865006841 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 589865006842 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 589865006843 dimer interface [polypeptide binding]; other site 589865006844 active site 589865006845 motif 1; other site 589865006846 motif 2; other site 589865006847 motif 3; other site 589865006848 Response regulator receiver domain; Region: Response_reg; pfam00072 589865006849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865006850 active site 589865006851 phosphorylation site [posttranslational modification] 589865006852 intermolecular recognition site; other site 589865006853 dimerization interface [polypeptide binding]; other site 589865006854 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865006855 PAS domain; Region: PAS_9; pfam13426 589865006856 putative active site [active] 589865006857 heme pocket [chemical binding]; other site 589865006858 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865006859 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865006860 metal binding site [ion binding]; metal-binding site 589865006861 active site 589865006862 I-site; other site 589865006863 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 589865006864 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 589865006865 ATP-grasp domain; Region: ATP-grasp_4; cl17255 589865006866 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 589865006867 B12 binding site [chemical binding]; other site 589865006868 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 589865006869 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 589865006870 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 589865006871 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 589865006872 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 589865006873 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 589865006874 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 589865006875 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 589865006876 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 589865006877 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 589865006878 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 589865006879 substrate binding site [chemical binding]; other site 589865006880 hexamer interface [polypeptide binding]; other site 589865006881 metal binding site [ion binding]; metal-binding site 589865006882 Predicted integral membrane protein [Function unknown]; Region: COG5616 589865006883 Predicted amidohydrolase [General function prediction only]; Region: COG0388 589865006884 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 589865006885 active site 589865006886 catalytic triad [active] 589865006887 dimer interface [polypeptide binding]; other site 589865006888 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 589865006889 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 589865006890 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 589865006891 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 589865006892 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 589865006893 Putative Fe-S cluster; Region: FeS; cl17515 589865006894 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 589865006895 PilZ domain; Region: PilZ; pfam07238 589865006896 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 589865006897 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865006898 Zn2+ binding site [ion binding]; other site 589865006899 Mg2+ binding site [ion binding]; other site 589865006900 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 589865006901 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 589865006902 Nitrogen regulatory protein P-II; Region: P-II; smart00938 589865006903 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 589865006904 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 589865006905 substrate binding pocket [chemical binding]; other site 589865006906 dimer interface [polypeptide binding]; other site 589865006907 inhibitor binding site; inhibition site 589865006908 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 589865006909 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 589865006910 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 589865006911 active site 589865006912 HIGH motif; other site 589865006913 nucleotide binding site [chemical binding]; other site 589865006914 active site 589865006915 KMSKS motif; other site 589865006916 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 589865006917 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 589865006918 Beta-Casp domain; Region: Beta-Casp; pfam10996 589865006919 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 589865006920 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 589865006921 Peptidase family M23; Region: Peptidase_M23; pfam01551 589865006922 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 589865006923 Yqey-like protein; Region: YqeY; cl17540 589865006924 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 589865006925 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 589865006926 active site 589865006927 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 589865006928 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 589865006929 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 589865006930 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 589865006931 motif II; other site 589865006932 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 589865006933 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 589865006934 heterodimer interface [polypeptide binding]; other site 589865006935 active site 589865006936 FMN binding site [chemical binding]; other site 589865006937 homodimer interface [polypeptide binding]; other site 589865006938 substrate binding site [chemical binding]; other site 589865006939 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 589865006940 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 589865006941 FAD binding pocket [chemical binding]; other site 589865006942 FAD binding motif [chemical binding]; other site 589865006943 phosphate binding motif [ion binding]; other site 589865006944 beta-alpha-beta structure motif; other site 589865006945 NAD binding pocket [chemical binding]; other site 589865006946 Iron coordination center [ion binding]; other site 589865006947 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 589865006948 ParB-like nuclease domain; Region: ParBc; pfam02195 589865006949 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 589865006950 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 589865006951 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 589865006952 P-loop; other site 589865006953 Magnesium ion binding site [ion binding]; other site 589865006954 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 589865006955 Magnesium ion binding site [ion binding]; other site 589865006956 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 589865006957 peptidase T-like protein; Region: PepT-like; TIGR01883 589865006958 metal binding site [ion binding]; metal-binding site 589865006959 putative dimer interface [polypeptide binding]; other site 589865006960 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 589865006961 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 589865006962 molybdopterin cofactor binding site; other site 589865006963 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 589865006964 molybdopterin cofactor binding site; other site 589865006965 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 589865006966 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 589865006967 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 589865006968 FAD binding pocket [chemical binding]; other site 589865006969 FAD binding motif [chemical binding]; other site 589865006970 phosphate binding motif [ion binding]; other site 589865006971 beta-alpha-beta structure motif; other site 589865006972 NAD binding pocket [chemical binding]; other site 589865006973 Iron coordination center [ion binding]; other site 589865006974 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 589865006975 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 589865006976 catalytic loop [active] 589865006977 iron binding site [ion binding]; other site 589865006978 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 589865006979 Integrase core domain; Region: rve; pfam00665 589865006980 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 589865006981 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 589865006982 Walker A motif; other site 589865006983 ATP binding site [chemical binding]; other site 589865006984 Walker B motif; other site 589865006985 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 589865006986 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 589865006987 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 589865006988 Transposase, Mutator family; Region: Transposase_mut; pfam00872 589865006989 MULE transposase domain; Region: MULE; pfam10551 589865006990 AAA ATPase domain; Region: AAA_16; pfam13191 589865006991 AAA domain; Region: AAA_22; pfam13401 589865006992 Transposase, Mutator family; Region: Transposase_mut; pfam00872 589865006993 MULE transposase domain; Region: MULE; pfam10551 589865006994 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 589865006995 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 589865006996 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 589865006997 ATP binding site [chemical binding]; other site 589865006998 putative Mg++ binding site [ion binding]; other site 589865006999 Protein of unknown function DUF45; Region: DUF45; pfam01863 589865007000 Transposase [DNA replication, recombination, and repair]; Region: COG5421 589865007001 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 589865007002 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 589865007003 dimer interface [polypeptide binding]; other site 589865007004 anticodon binding site; other site 589865007005 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 589865007006 homodimer interface [polypeptide binding]; other site 589865007007 motif 1; other site 589865007008 active site 589865007009 motif 2; other site 589865007010 GAD domain; Region: GAD; pfam02938 589865007011 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 589865007012 active site 589865007013 motif 3; other site 589865007014 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 589865007015 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 589865007016 dimer interface [polypeptide binding]; other site 589865007017 motif 1; other site 589865007018 active site 589865007019 motif 2; other site 589865007020 motif 3; other site 589865007021 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 589865007022 anticodon binding site; other site 589865007023 CoA binding domain; Region: CoA_binding_2; pfam13380 589865007024 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 589865007025 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 589865007026 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 589865007027 motif II; other site 589865007028 L-aspartate oxidase; Provisional; Region: PRK09077 589865007029 L-aspartate oxidase; Provisional; Region: PRK06175 589865007030 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 589865007031 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 589865007032 DsrC like protein; Region: DsrC; pfam04358 589865007033 integrase; Provisional; Region: PRK09692 589865007034 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 589865007035 active site 589865007036 Int/Topo IB signature motif; other site 589865007037 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 589865007038 YcfA-like protein; Region: YcfA; pfam07927 589865007039 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 589865007040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 589865007041 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 589865007042 active site 589865007043 metal binding site [ion binding]; metal-binding site 589865007044 Domain of unknown function (DUF927); Region: DUF927; pfam06048 589865007045 Helix-turn-helix domain; Region: HTH_17; pfam12728 589865007046 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 589865007047 Phage-related tail protein [Function unknown]; Region: COG5283 589865007048 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 589865007049 Helix-turn-helix domain; Region: HTH_38; pfam13936 589865007050 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 589865007051 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 589865007052 Walker A motif; other site 589865007053 ATP binding site [chemical binding]; other site 589865007054 Walker B motif; other site 589865007055 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 589865007056 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 589865007057 substrate binding site [chemical binding]; other site 589865007058 ATP binding site [chemical binding]; other site 589865007059 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 589865007060 dimer interface [polypeptide binding]; other site 589865007061 motif 1; other site 589865007062 active site 589865007063 motif 2; other site 589865007064 motif 3; other site 589865007065 HEAT-like repeat; Region: HEAT_EZ; pfam13513 589865007066 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 589865007067 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 589865007068 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 589865007069 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 589865007070 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 589865007071 non-heme iron binding site [ion binding]; other site 589865007072 dimer interface [polypeptide binding]; other site 589865007073 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 589865007074 non-heme iron binding site [ion binding]; other site 589865007075 dimer interface [polypeptide binding]; other site 589865007076 Rubrerythrin [Energy production and conversion]; Region: COG1592 589865007077 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 589865007078 binuclear metal center [ion binding]; other site 589865007079 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 589865007080 iron binding site [ion binding]; other site 589865007081 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 589865007082 metal binding site 2 [ion binding]; metal-binding site 589865007083 putative DNA binding helix; other site 589865007084 metal binding site 1 [ion binding]; metal-binding site 589865007085 dimer interface [polypeptide binding]; other site 589865007086 structural Zn2+ binding site [ion binding]; other site 589865007087 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 589865007088 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 589865007089 NADP binding site [chemical binding]; other site 589865007090 dimer interface [polypeptide binding]; other site 589865007091 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 589865007092 elongation factor G; Reviewed; Region: PRK12740 589865007093 G1 box; other site 589865007094 putative GEF interaction site [polypeptide binding]; other site 589865007095 GTP/Mg2+ binding site [chemical binding]; other site 589865007096 Switch I region; other site 589865007097 G2 box; other site 589865007098 G3 box; other site 589865007099 Switch II region; other site 589865007100 G4 box; other site 589865007101 G5 box; other site 589865007102 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 589865007103 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 589865007104 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 589865007105 Uncharacterized conserved protein [Function unknown]; Region: COG1284 589865007106 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 589865007107 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 589865007108 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 589865007109 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 589865007110 DHH family; Region: DHH; pfam01368 589865007111 FOG: CBS domain [General function prediction only]; Region: COG0517 589865007112 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 589865007113 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 589865007114 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 589865007115 active site 589865007116 NTP binding site [chemical binding]; other site 589865007117 metal binding triad [ion binding]; metal-binding site 589865007118 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 589865007119 GAF domain; Region: GAF_2; pfam13185 589865007120 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 589865007121 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865007122 Zn2+ binding site [ion binding]; other site 589865007123 Mg2+ binding site [ion binding]; other site 589865007124 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865007125 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 589865007126 metal binding site [ion binding]; metal-binding site 589865007127 nucleotidyl binding site; other site 589865007128 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 589865007129 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 589865007130 active site 589865007131 DNA binding site [nucleotide binding] 589865007132 Int/Topo IB signature motif; other site 589865007133 Ribosomal protein S21; Region: Ribosomal_S21; pfam01165 589865007134 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 589865007135 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 589865007136 substrate binding pocket [chemical binding]; other site 589865007137 membrane-bound complex binding site; other site 589865007138 hinge residues; other site 589865007139 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 589865007140 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 589865007141 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 589865007142 Walker A motif; other site 589865007143 ATP binding site [chemical binding]; other site 589865007144 Walker B motif; other site 589865007145 arginine finger; other site 589865007146 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; cl17393 589865007147 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 589865007148 Integrase core domain; Region: rve; pfam00665 589865007149 transposase; Provisional; Region: PRK06526 589865007150 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 589865007151 Walker A motif; other site 589865007152 ATP binding site [chemical binding]; other site 589865007153 Walker B motif; other site 589865007154 imidazole glycerol phosphate synthase hisHF; Region: PLN02617 589865007155 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 589865007156 putative active site [active] 589865007157 oxyanion strand; other site 589865007158 catalytic triad [active] 589865007159 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 589865007160 substrate binding site [chemical binding]; other site 589865007161 glutamase interaction surface [polypeptide binding]; other site 589865007162 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 589865007163 active site 589865007164 dimerization interface [polypeptide binding]; other site 589865007165 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 589865007166 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 589865007167 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 589865007168 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 589865007169 peroxiredoxin; Region: AhpC; TIGR03137 589865007170 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 589865007171 dimer interface [polypeptide binding]; other site 589865007172 decamer (pentamer of dimers) interface [polypeptide binding]; other site 589865007173 catalytic triad [active] 589865007174 peroxidatic and resolving cysteines [active] 589865007175 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 589865007176 Shikimate kinase; Region: SKI; pfam01202 589865007177 ADP binding site [chemical binding]; other site 589865007178 magnesium binding site [ion binding]; other site 589865007179 putative shikimate binding site; other site 589865007180 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 589865007181 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 589865007182 Tetramer interface [polypeptide binding]; other site 589865007183 active site 589865007184 FMN-binding site [chemical binding]; other site 589865007185 glycogen synthase; Provisional; Region: glgA; PRK00654 589865007186 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 589865007187 ADP-binding pocket [chemical binding]; other site 589865007188 homodimer interface [polypeptide binding]; other site 589865007189 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 589865007190 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 589865007191 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 589865007192 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 589865007193 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 589865007194 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 589865007195 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 589865007196 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 589865007197 dimer interface [polypeptide binding]; other site 589865007198 phosphorylation site [posttranslational modification] 589865007199 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865007200 ATP binding site [chemical binding]; other site 589865007201 Mg2+ binding site [ion binding]; other site 589865007202 G-X-G motif; other site 589865007203 Response regulator receiver domain; Region: Response_reg; pfam00072 589865007204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865007205 active site 589865007206 phosphorylation site [posttranslational modification] 589865007207 intermolecular recognition site; other site 589865007208 dimerization interface [polypeptide binding]; other site 589865007209 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 589865007210 dimerization interface [polypeptide binding]; other site 589865007211 putative DNA binding site [nucleotide binding]; other site 589865007212 putative Zn2+ binding site [ion binding]; other site 589865007213 Bacitracin resistance protein BacA; Region: BacA; pfam02673 589865007214 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 589865007215 dimerization interface [polypeptide binding]; other site 589865007216 putative DNA binding site [nucleotide binding]; other site 589865007217 putative Zn2+ binding site [ion binding]; other site 589865007218 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 589865007219 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865007220 metal binding site [ion binding]; metal-binding site 589865007221 active site 589865007222 I-site; other site 589865007223 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 589865007224 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 589865007225 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 589865007226 dimerization interface [polypeptide binding]; other site 589865007227 putative ATP binding site [chemical binding]; other site 589865007228 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 589865007229 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 589865007230 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 589865007231 DNA gyrase subunit A; Validated; Region: PRK05560 589865007232 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 589865007233 CAP-like domain; other site 589865007234 active site 589865007235 primary dimer interface [polypeptide binding]; other site 589865007236 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 589865007237 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 589865007238 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 589865007239 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 589865007240 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 589865007241 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 589865007242 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865007243 Mg2+ binding site [ion binding]; other site 589865007244 G-X-G motif; other site 589865007245 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 589865007246 anchoring element; other site 589865007247 dimer interface [polypeptide binding]; other site 589865007248 ATP binding site [chemical binding]; other site 589865007249 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 589865007250 active site 589865007251 putative metal-binding site [ion binding]; other site 589865007252 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 589865007253 DNA polymerase III subunit beta; Validated; Region: PRK05643 589865007254 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 589865007255 putative DNA binding surface [nucleotide binding]; other site 589865007256 dimer interface [polypeptide binding]; other site 589865007257 beta-clamp/clamp loader binding surface; other site 589865007258 beta-clamp/translesion DNA polymerase binding surface; other site 589865007259 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 589865007260 Beta-lactamase; Region: Beta-lactamase; cl17358 589865007261 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 589865007262 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 589865007263 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 589865007264 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 589865007265 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 589865007266 NHL repeat; Region: NHL; pfam01436 589865007267 Uncharacterized conserved protein [Function unknown]; Region: COG3391 589865007268 NHL repeat; Region: NHL; pfam01436 589865007269 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865007270 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 589865007271 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 589865007272 dimer interface [polypeptide binding]; other site 589865007273 active site 589865007274 metal binding site [ion binding]; metal-binding site 589865007275 Protein of unknown function, DUF481; Region: DUF481; pfam04338 589865007276 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 589865007277 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 589865007278 ATP binding site [chemical binding]; other site 589865007279 putative Mg++ binding site [ion binding]; other site 589865007280 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 589865007281 nucleotide binding region [chemical binding]; other site 589865007282 ATP-binding site [chemical binding]; other site 589865007283 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 589865007284 HRDC domain; Region: HRDC; pfam00570 589865007285 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 589865007286 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 589865007287 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 589865007288 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 589865007289 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 589865007290 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 589865007291 selenobiotic family peptide radical SAM maturase; Region: rSAM_for_selen; TIGR04082 589865007292 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 589865007293 FeS/SAM binding site; other site 589865007294 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 589865007295 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 589865007296 Rubredoxin; Region: Rubredoxin; pfam00301 589865007297 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 589865007298 iron binding site [ion binding]; other site 589865007299 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 589865007300 FOG: CBS domain [General function prediction only]; Region: COG0517 589865007301 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_9; cd04622 589865007302 Pirin-related protein [General function prediction only]; Region: COG1741 589865007303 Pirin; Region: Pirin; pfam02678 589865007304 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 589865007305 Methyltransferase domain; Region: Methyltransf_31; pfam13847 589865007306 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 589865007307 S-adenosylmethionine binding site [chemical binding]; other site 589865007308 HsdM N-terminal domain; Region: HsdM_N; pfam12161 589865007309 KilA-N domain; Region: KilA-N; pfam04383 589865007310 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 589865007311 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 589865007312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865007313 homodimer interface [polypeptide binding]; other site 589865007314 catalytic residue [active] 589865007315 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 589865007316 Surface antigen; Region: Bac_surface_Ag; pfam01103 589865007317 Family of unknown function (DUF490); Region: DUF490; pfam04357 589865007318 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 589865007319 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 589865007320 metal-binding site [ion binding] 589865007321 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 589865007322 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 589865007323 motif II; other site 589865007324 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 589865007325 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 589865007326 acyl-activating enzyme (AAE) consensus motif; other site 589865007327 putative AMP binding site [chemical binding]; other site 589865007328 putative active site [active] 589865007329 putative CoA binding site [chemical binding]; other site 589865007330 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 589865007331 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 589865007332 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 589865007333 putative acyl-acceptor binding pocket; other site 589865007334 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 589865007335 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 589865007336 nucleoside/Zn binding site; other site 589865007337 dimer interface [polypeptide binding]; other site 589865007338 catalytic motif [active] 589865007339 HPP family; Region: HPP; pfam04982 589865007340 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 589865007341 Protein export membrane protein; Region: SecD_SecF; cl14618 589865007342 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 589865007343 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 589865007344 HlyD family secretion protein; Region: HlyD_3; pfam13437 589865007345 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 589865007346 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 589865007347 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 589865007348 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 589865007349 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 589865007350 HlyD family secretion protein; Region: HlyD_3; pfam13437 589865007351 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 589865007352 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 589865007353 4Fe-4S binding domain; Region: Fer4_5; pfam12801 589865007354 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 589865007355 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 589865007356 histidine kinase; Provisional; Region: PRK13557 589865007357 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865007358 putative active site [active] 589865007359 heme pocket [chemical binding]; other site 589865007360 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 589865007361 dimer interface [polypeptide binding]; other site 589865007362 phosphorylation site [posttranslational modification] 589865007363 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865007364 ATP binding site [chemical binding]; other site 589865007365 Mg2+ binding site [ion binding]; other site 589865007366 G-X-G motif; other site 589865007367 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865007368 active site 589865007369 phosphorylation site [posttranslational modification] 589865007370 intermolecular recognition site; other site 589865007371 dimerization interface [polypeptide binding]; other site 589865007372 integrase; Provisional; Region: PRK09692 589865007373 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 589865007374 active site 589865007375 Int/Topo IB signature motif; other site 589865007376 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 589865007377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 589865007378 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 589865007379 active site 589865007380 metal binding site [ion binding]; metal-binding site 589865007381 interdomain interaction site; other site 589865007382 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 589865007383 Terminase small subunit; Region: Terminase_2; cl01513 589865007384 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 589865007385 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 589865007386 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 589865007387 Predicted ATPase [General function prediction only]; Region: COG4637 589865007388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865007389 Walker A/P-loop; other site 589865007390 ATP binding site [chemical binding]; other site 589865007391 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 589865007392 ABC transporter signature motif; other site 589865007393 Walker B; other site 589865007394 D-loop; other site 589865007395 H-loop/switch region; other site 589865007396 Methyltransferase domain; Region: Methyltransf_26; pfam13659 589865007397 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 589865007398 Divergent AAA domain; Region: AAA_4; pfam04326 589865007399 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 589865007400 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 589865007401 Transposase, Mutator family; Region: Transposase_mut; pfam00872 589865007402 MULE transposase domain; Region: MULE; pfam10551 589865007403 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 589865007404 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 589865007405 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 589865007406 Probable Catalytic site; other site 589865007407 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 589865007408 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 589865007409 Domain of unknown function DUF20; Region: UPF0118; pfam01594 589865007410 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 589865007411 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 589865007412 homodimer interface [polypeptide binding]; other site 589865007413 substrate-cofactor binding pocket; other site 589865007414 catalytic residue [active] 589865007415 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 589865007416 oligomerisation interface [polypeptide binding]; other site 589865007417 mobile loop; other site 589865007418 roof hairpin; other site 589865007419 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 589865007420 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 589865007421 ring oligomerisation interface [polypeptide binding]; other site 589865007422 ATP/Mg binding site [chemical binding]; other site 589865007423 stacking interactions; other site 589865007424 hinge regions; other site 589865007425 Helix-turn-helix domain; Region: HTH_36; pfam13730 589865007426 B-block binding subunit of TFIIIC; Region: B-block_TFIIIC; pfam04182 589865007427 DnaA N-terminal domain; Region: DnaA_N; pfam11638 589865007428 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 589865007429 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 589865007430 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 589865007431 HicB family; Region: HicB; pfam05534 589865007432 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 589865007433 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 589865007434 cofactor binding site; other site 589865007435 DNA binding site [nucleotide binding] 589865007436 substrate interaction site [chemical binding]; other site 589865007437 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865007438 Mg2+ binding site [ion binding]; other site 589865007439 G-X-G motif; other site 589865007440 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 589865007441 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 589865007442 Walker A motif; other site 589865007443 ATP binding site [chemical binding]; other site 589865007444 Walker B motif; other site 589865007445 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 589865007446 Integrase core domain; Region: rve; pfam00665 589865007447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865007448 AAA domain; Region: AAA_21; pfam13304 589865007449 Walker A/P-loop; other site 589865007450 ATP binding site [chemical binding]; other site 589865007451 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865007452 Q-loop/lid; other site 589865007453 ABC transporter signature motif; other site 589865007454 Walker B; other site 589865007455 D-loop; other site 589865007456 H-loop/switch region; other site 589865007457 integrase; Provisional; Region: int; PHA02601 589865007458 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 589865007459 active site 589865007460 DNA binding site [nucleotide binding] 589865007461 Int/Topo IB signature motif; other site 589865007462 Family description; Region: VCBS; pfam13517 589865007463 acetyl-CoA synthetase; Provisional; Region: PRK00174 589865007464 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 589865007465 active site 589865007466 CoA binding site [chemical binding]; other site 589865007467 acyl-activating enzyme (AAE) consensus motif; other site 589865007468 AMP binding site [chemical binding]; other site 589865007469 acetate binding site [chemical binding]; other site 589865007470 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 589865007471 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 589865007472 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 589865007473 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 589865007474 non-specific DNA binding site [nucleotide binding]; other site 589865007475 salt bridge; other site 589865007476 sequence-specific DNA binding site [nucleotide binding]; other site 589865007477 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 589865007478 active site 589865007479 dimer interface [polypeptide binding]; other site 589865007480 FAD binding domain; Region: FAD_binding_4; pfam01565 589865007481 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 589865007482 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 589865007483 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 589865007484 active site 589865007485 phosphorylation site [posttranslational modification] 589865007486 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 589865007487 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 589865007488 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 589865007489 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 589865007490 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 589865007491 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 589865007492 Walker A/P-loop; other site 589865007493 ATP binding site [chemical binding]; other site 589865007494 Q-loop/lid; other site 589865007495 ABC transporter signature motif; other site 589865007496 Walker B; other site 589865007497 D-loop; other site 589865007498 H-loop/switch region; other site 589865007499 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 589865007500 OstA-like protein; Region: OstA; pfam03968 589865007501 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 589865007502 feedback inhibition sensing region; other site 589865007503 homohexameric interface [polypeptide binding]; other site 589865007504 nucleotide binding site [chemical binding]; other site 589865007505 N-acetyl-L-glutamate binding site [chemical binding]; other site 589865007506 acetylornithine aminotransferase; Provisional; Region: PRK02627 589865007507 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 589865007508 inhibitor-cofactor binding pocket; inhibition site 589865007509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865007510 catalytic residue [active] 589865007511 ornithine carbamoyltransferase; Provisional; Region: PRK00779 589865007512 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 589865007513 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 589865007514 argininosuccinate synthase; Provisional; Region: PRK13820 589865007515 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 589865007516 ANP binding site [chemical binding]; other site 589865007517 Substrate Binding Site II [chemical binding]; other site 589865007518 Substrate Binding Site I [chemical binding]; other site 589865007519 argininosuccinate lyase; Provisional; Region: PRK00855 589865007520 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 589865007521 active sites [active] 589865007522 tetramer interface [polypeptide binding]; other site 589865007523 diaminopimelate decarboxylase; Region: lysA; TIGR01048 589865007524 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 589865007525 active site 589865007526 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 589865007527 substrate binding site [chemical binding]; other site 589865007528 catalytic residues [active] 589865007529 dimer interface [polypeptide binding]; other site 589865007530 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 589865007531 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 589865007532 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 589865007533 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 589865007534 dihydrodipicolinate synthase; Region: dapA; TIGR00674 589865007535 dimer interface [polypeptide binding]; other site 589865007536 active site 589865007537 catalytic residue [active] 589865007538 dihydrodipicolinate reductase; Provisional; Region: PRK00048 589865007539 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 589865007540 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 589865007541 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 589865007542 catalytic center binding site [active] 589865007543 ATP binding site [chemical binding]; other site 589865007544 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 589865007545 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 589865007546 active site 589865007547 intersubunit interactions; other site 589865007548 catalytic residue [active] 589865007549 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 589865007550 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 589865007551 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 589865007552 S-adenosylmethionine binding site [chemical binding]; other site 589865007553 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 589865007554 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 589865007555 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 589865007556 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 589865007557 dimer interface [polypeptide binding]; other site 589865007558 conserved gate region; other site 589865007559 putative PBP binding loops; other site 589865007560 ABC-ATPase subunit interface; other site 589865007561 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 589865007562 dimer interface [polypeptide binding]; other site 589865007563 conserved gate region; other site 589865007564 putative PBP binding loops; other site 589865007565 ABC-ATPase subunit interface; other site 589865007566 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 589865007567 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 589865007568 Walker A/P-loop; other site 589865007569 ATP binding site [chemical binding]; other site 589865007570 Q-loop/lid; other site 589865007571 ABC transporter signature motif; other site 589865007572 Walker B; other site 589865007573 D-loop; other site 589865007574 H-loop/switch region; other site 589865007575 TOBE domain; Region: TOBE_2; pfam08402 589865007576 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 589865007577 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 589865007578 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 589865007579 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 589865007580 S-adenosylmethionine binding site [chemical binding]; other site 589865007581 AAA domain; Region: AAA_26; pfam13500 589865007582 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 589865007583 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 589865007584 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 589865007585 FeS/SAM binding site; other site 589865007586 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 589865007587 Methyltransferase domain; Region: Methyltransf_31; pfam13847 589865007588 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 589865007589 S-adenosylmethionine binding site [chemical binding]; other site 589865007590 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 589865007591 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 589865007592 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 589865007593 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 589865007594 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 589865007595 HSP70 interaction site [polypeptide binding]; other site 589865007596 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 589865007597 dimerization interface [polypeptide binding]; other site 589865007598 putative DNA binding site [nucleotide binding]; other site 589865007599 putative Zn2+ binding site [ion binding]; other site 589865007600 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 589865007601 NodB motif; other site 589865007602 putative active site [active] 589865007603 putative catalytic site [active] 589865007604 Zn binding site [ion binding]; other site 589865007605 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 589865007606 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 589865007607 substrate binding pocket [chemical binding]; other site 589865007608 chain length determination region; other site 589865007609 substrate-Mg2+ binding site; other site 589865007610 catalytic residues [active] 589865007611 aspartate-rich region 1; other site 589865007612 active site lid residues [active] 589865007613 aspartate-rich region 2; other site 589865007614 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 589865007615 DEAD/DEAH box helicase; Region: DEAD; pfam00270 589865007616 ATP binding site [chemical binding]; other site 589865007617 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 589865007618 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 589865007619 Ligand Binding Site [chemical binding]; other site 589865007620 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 589865007621 putative trimer interface [polypeptide binding]; other site 589865007622 putative CoA binding site [chemical binding]; other site 589865007623 ATP-grasp domain; Region: ATP-grasp_4; cl17255 589865007624 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 589865007625 Found in ATP-dependent protease La (LON); Region: LON; smart00464 589865007626 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 589865007627 Walker A motif; other site 589865007628 ATP binding site [chemical binding]; other site 589865007629 Walker B motif; other site 589865007630 arginine finger; other site 589865007631 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 589865007632 YceG-like family; Region: YceG; pfam02618 589865007633 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 589865007634 dimerization interface [polypeptide binding]; other site 589865007635 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 589865007636 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 589865007637 homodimer interface [polypeptide binding]; other site 589865007638 oligonucleotide binding site [chemical binding]; other site 589865007639 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 589865007640 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 589865007641 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 589865007642 FeS/SAM binding site; other site 589865007643 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 589865007644 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 589865007645 Organic solvent tolerance protein; Region: OstA_C; pfam04453 589865007646 Transglycosylase SLT domain; Region: SLT_2; pfam13406 589865007647 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 589865007648 N-acetyl-D-glucosamine binding site [chemical binding]; other site 589865007649 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 589865007650 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 589865007651 type II secretion system protein D; Region: type_II_gspD; TIGR02517 589865007652 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 589865007653 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 589865007654 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 589865007655 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 589865007656 type II secretion system protein E; Region: type_II_gspE; TIGR02533 589865007657 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 589865007658 Walker A motif; other site 589865007659 ATP binding site [chemical binding]; other site 589865007660 Walker B motif; other site 589865007661 type II secretion system protein F; Region: GspF; TIGR02120 589865007662 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 589865007663 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 589865007664 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 589865007665 type II secretion system protein J; Region: gspJ; TIGR01711 589865007666 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 589865007667 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 589865007668 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 589865007669 GspL periplasmic domain; Region: GspL_C; pfam12693 589865007670 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 589865007671 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 589865007672 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 589865007673 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 589865007674 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 589865007675 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865007676 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865007677 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 589865007678 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 589865007679 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 589865007680 TPR repeat; Region: TPR_11; pfam13414 589865007681 binding surface 589865007682 TPR motif; other site 589865007683 CHRD domain; Region: CHRD; cl06473 589865007684 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cl01843 589865007685 putative multimerization interface [polypeptide binding]; other site 589865007686 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 589865007687 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 589865007688 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 589865007689 Helix-hairpin-helix motif; Region: HHH; pfam00633 589865007690 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 589865007691 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 589865007692 SmpB-tmRNA interface; other site 589865007693 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 589865007694 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 589865007695 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 589865007696 Walker A motif; other site 589865007697 ATP binding site [chemical binding]; other site 589865007698 Walker B motif; other site 589865007699 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 589865007700 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 589865007701 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 589865007702 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 589865007703 Type II transport protein GspH; Region: GspH; pfam12019 589865007704 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 589865007705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865007706 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 589865007707 Walker A/P-loop; other site 589865007708 ATP binding site [chemical binding]; other site 589865007709 Q-loop/lid; other site 589865007710 ABC transporter signature motif; other site 589865007711 Walker B; other site 589865007712 D-loop; other site 589865007713 H-loop/switch region; other site 589865007714 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 589865007715 Predicted membrane protein [Function unknown]; Region: COG1238 589865007716 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 589865007717 Methyltransferase domain; Region: Methyltransf_18; pfam12847 589865007718 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 589865007719 elongation factor G; Reviewed; Region: PRK12740 589865007720 G1 box; other site 589865007721 putative GEF interaction site [polypeptide binding]; other site 589865007722 GTP/Mg2+ binding site [chemical binding]; other site 589865007723 Switch I region; other site 589865007724 G2 box; other site 589865007725 G3 box; other site 589865007726 Switch II region; other site 589865007727 G4 box; other site 589865007728 G5 box; other site 589865007729 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 589865007730 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 589865007731 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_C; cd04097 589865007732 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 589865007733 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 589865007734 active site 589865007735 HDOD domain; Region: HDOD; pfam08668 589865007736 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865007737 Zn2+ binding site [ion binding]; other site 589865007738 Mg2+ binding site [ion binding]; other site 589865007739 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 589865007740 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 589865007741 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 589865007742 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 589865007743 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 589865007744 4Fe-4S binding domain; Region: Fer4_6; pfam12837 589865007745 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 589865007746 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 589865007747 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 589865007748 NusB family; Region: NusB; pfam01029 589865007749 16S rRNA methyltransferase B; Provisional; Region: PRK14902 589865007750 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 589865007751 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 589865007752 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 589865007753 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 589865007754 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 589865007755 preprotein translocase subunit SecB; Validated; Region: PRK05751 589865007756 SecA binding site; other site 589865007757 Preprotein binding site; other site 589865007758 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 589865007759 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 589865007760 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 589865007761 AMIN domain; Region: AMIN; pfam11741 589865007762 Secretin and TonB N terminus short domain; Region: STN; smart00965 589865007763 TPR repeat; Region: TPR_11; pfam13414 589865007764 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 589865007765 binding surface 589865007766 TPR motif; other site 589865007767 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 589865007768 Pilus assembly protein, PilO; Region: PilO; cl01234 589865007769 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 589865007770 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 589865007771 Competence protein A; Region: Competence_A; pfam11104 589865007772 Cell division protein FtsA; Region: FtsA; pfam14450 589865007773 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 589865007774 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 589865007775 Catalytic site [active] 589865007776 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 589865007777 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 589865007778 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 589865007779 dihydroorotase; Validated; Region: pyrC; PRK09357 589865007780 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 589865007781 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 589865007782 active site 589865007783 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 589865007784 DNA topoisomerase I; Validated; Region: PRK06599 589865007785 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 589865007786 active site 589865007787 interdomain interaction site; other site 589865007788 putative metal-binding site [ion binding]; other site 589865007789 nucleotide binding site [chemical binding]; other site 589865007790 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 589865007791 domain I; other site 589865007792 DNA binding groove [nucleotide binding] 589865007793 phosphate binding site [ion binding]; other site 589865007794 domain II; other site 589865007795 domain III; other site 589865007796 nucleotide binding site [chemical binding]; other site 589865007797 catalytic site [active] 589865007798 domain IV; other site 589865007799 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 589865007800 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 589865007801 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 589865007802 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 589865007803 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 589865007804 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 589865007805 DNA protecting protein DprA; Region: dprA; TIGR00732 589865007806 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 589865007807 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 589865007808 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 589865007809 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 589865007810 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 589865007811 DNA binding residues [nucleotide binding] 589865007812 DNA primase; Validated; Region: dnaG; PRK05667 589865007813 CHC2 zinc finger; Region: zf-CHC2; pfam01807 589865007814 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 589865007815 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 589865007816 active site 589865007817 metal binding site [ion binding]; metal-binding site 589865007818 interdomain interaction site; other site 589865007819 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 589865007820 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 589865007821 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 589865007822 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 589865007823 Uncharacterized conserved protein [Function unknown]; Region: COG3347 589865007824 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 589865007825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 589865007826 NAD(P) binding site [chemical binding]; other site 589865007827 active site 589865007828 Bacterial SH3 domain; Region: SH3_4; pfam06347 589865007829 Bacterial SH3 domain; Region: SH3_3; pfam08239 589865007830 4Fe-4S binding domain; Region: Fer4_5; pfam12801 589865007831 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 589865007832 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 589865007833 PilZ domain; Region: PilZ; pfam07238 589865007834 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 589865007835 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 589865007836 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 589865007837 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 589865007838 Domain of unknown function (DUF389); Region: DUF389; pfam04087 589865007839 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 589865007840 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 589865007841 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 589865007842 Cation transport protein; Region: TrkH; cl17365 589865007843 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 589865007844 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 589865007845 TrkA-N domain; Region: TrkA_N; pfam02254 589865007846 TrkA-C domain; Region: TrkA_C; pfam02080 589865007847 TrkA-N domain; Region: TrkA_N; pfam02254 589865007848 TrkA-C domain; Region: TrkA_C; pfam02080 589865007849 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 589865007850 S-adenosylmethionine binding site [chemical binding]; other site 589865007851 Putative methyltransferase; Region: Methyltransf_16; pfam10294 589865007852 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 589865007853 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 589865007854 catalytic residues [active] 589865007855 Ferredoxin [Energy production and conversion]; Region: COG1146 589865007856 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 589865007857 HD domain; Region: HD; pfam01966 589865007858 hybrid cluster protein; Provisional; Region: PRK05290 589865007859 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 589865007860 ACS interaction site; other site 589865007861 CODH interaction site; other site 589865007862 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 589865007863 hybrid metal cluster; other site 589865007864 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 589865007865 nucleoside/Zn binding site; other site 589865007866 dimer interface [polypeptide binding]; other site 589865007867 catalytic motif [active] 589865007868 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 589865007869 FliW protein; Region: FliW; cl00740 589865007870 Global regulator protein family; Region: CsrA; pfam02599 589865007871 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 589865007872 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 589865007873 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 589865007874 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 589865007875 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 589865007876 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 589865007877 FlgN protein; Region: FlgN; pfam05130 589865007878 Rod binding protein; Region: Rod-binding; pfam10135 589865007879 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 589865007880 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 589865007881 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 589865007882 Flagellar L-ring protein; Region: FlgH; pfam02107 589865007883 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 589865007884 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 589865007885 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 589865007886 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 589865007887 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 589865007888 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 589865007889 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 589865007890 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 589865007891 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 589865007892 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 589865007893 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 589865007894 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 589865007895 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 589865007896 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 589865007897 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 589865007898 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 589865007899 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 589865007900 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 589865007901 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 589865007902 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 589865007903 PAS fold; Region: PAS_4; pfam08448 589865007904 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865007905 putative active site [active] 589865007906 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 589865007907 GAF domain; Region: GAF; pfam01590 589865007908 PAS domain; Region: PAS_9; pfam13426 589865007909 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865007910 putative active site [active] 589865007911 heme pocket [chemical binding]; other site 589865007912 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 589865007913 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865007914 Zn2+ binding site [ion binding]; other site 589865007915 Mg2+ binding site [ion binding]; other site 589865007916 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 589865007917 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 589865007918 catalytic residue [active] 589865007919 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 589865007920 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 589865007921 Ligand Binding Site [chemical binding]; other site 589865007922 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 589865007923 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 589865007924 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 589865007925 30S subunit binding site; other site 589865007926 quinolinate synthetase; Provisional; Region: PRK09375 589865007927 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 589865007928 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 589865007929 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 589865007930 catalytic residue [active] 589865007931 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 589865007932 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 589865007933 glutaminase active site [active] 589865007934 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 589865007935 dimer interface [polypeptide binding]; other site 589865007936 active site 589865007937 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 589865007938 dimer interface [polypeptide binding]; other site 589865007939 active site 589865007940 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 589865007941 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 589865007942 Substrate binding site; other site 589865007943 Cupin domain; Region: Cupin_2; cl17218 589865007944 MltA specific insert domain; Region: MltA; smart00925 589865007945 3D domain; Region: 3D; pfam06725 589865007946 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 589865007947 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 589865007948 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 589865007949 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 589865007950 dimer interface [polypeptide binding]; other site 589865007951 active site residues [active] 589865007952 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 589865007953 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 589865007954 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 589865007955 homodimer interface [polypeptide binding]; other site 589865007956 substrate-cofactor binding pocket; other site 589865007957 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865007958 catalytic residue [active] 589865007959 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 589865007960 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 589865007961 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 589865007962 Walker A motif; other site 589865007963 ATP binding site [chemical binding]; other site 589865007964 Walker B motif; other site 589865007965 arginine finger; other site 589865007966 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 589865007967 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 589865007968 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 589865007969 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 589865007970 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 589865007971 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 589865007972 Walker A motif; other site 589865007973 ATP binding site [chemical binding]; other site 589865007974 Walker B motif; other site 589865007975 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 589865007976 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 589865007977 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 589865007978 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 589865007979 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 589865007980 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 589865007981 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 589865007982 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865007983 Zn2+ binding site [ion binding]; other site 589865007984 Mg2+ binding site [ion binding]; other site 589865007985 DnaJ domain; Region: DnaJ; pfam00226 589865007986 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 589865007987 non-specific DNA binding site [nucleotide binding]; other site 589865007988 salt bridge; other site 589865007989 sequence-specific DNA binding site [nucleotide binding]; other site 589865007990 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 589865007991 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 589865007992 Response regulator receiver domain; Region: Response_reg; pfam00072 589865007993 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865007994 active site 589865007995 phosphorylation site [posttranslational modification] 589865007996 intermolecular recognition site; other site 589865007997 dimerization interface [polypeptide binding]; other site 589865007998 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 589865007999 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865008000 putative active site [active] 589865008001 heme pocket [chemical binding]; other site 589865008002 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 589865008003 dimer interface [polypeptide binding]; other site 589865008004 phosphorylation site [posttranslational modification] 589865008005 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865008006 ATP binding site [chemical binding]; other site 589865008007 Mg2+ binding site [ion binding]; other site 589865008008 G-X-G motif; other site 589865008009 Response regulator receiver domain; Region: Response_reg; pfam00072 589865008010 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865008011 active site 589865008012 phosphorylation site [posttranslational modification] 589865008013 intermolecular recognition site; other site 589865008014 dimerization interface [polypeptide binding]; other site 589865008015 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 589865008016 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 589865008017 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 589865008018 MOSC domain; Region: MOSC; pfam03473 589865008019 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 589865008020 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 589865008021 FeS/SAM binding site; other site 589865008022 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 589865008023 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 589865008024 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 589865008025 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 589865008026 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 589865008027 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 589865008028 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 589865008029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 589865008030 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 589865008031 CPxP motif; other site 589865008032 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 589865008033 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 589865008034 active site 589865008035 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 589865008036 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 589865008037 Radical SAM superfamily; Region: Radical_SAM; pfam04055 589865008038 FeS/SAM binding site; other site 589865008039 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 589865008040 B12 binding domain; Region: B12-binding; pfam02310 589865008041 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 589865008042 B12 binding site [chemical binding]; other site 589865008043 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 589865008044 FeS/SAM binding site; other site 589865008045 putative inner membrane protein; Provisional; Region: PRK11099 589865008046 Sulphur transport; Region: Sulf_transp; pfam04143 589865008047 hypothetical protein; Provisional; Region: PRK07208 589865008048 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 589865008049 UDP-galactopyranose mutase; Region: GLF; pfam03275 589865008050 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 589865008051 ATP-grasp domain; Region: ATP-grasp_4; cl17255 589865008052 HDOD domain; Region: HDOD; pfam08668 589865008053 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 589865008054 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 589865008055 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 589865008056 P-loop; other site 589865008057 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 589865008058 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 589865008059 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 589865008060 Walker A motif; other site 589865008061 ATP binding site [chemical binding]; other site 589865008062 Walker B motif; other site 589865008063 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 589865008064 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 589865008065 ABC transporter ATPase component; Reviewed; Region: PRK11147 589865008066 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 589865008067 ABC transporter; Region: ABC_tran_2; pfam12848 589865008068 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 589865008069 Membrane transport protein; Region: Mem_trans; cl09117 589865008070 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 589865008071 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 589865008072 active site 589865008073 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 589865008074 FAD binding site [chemical binding]; other site 589865008075 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 589865008076 EamA-like transporter family; Region: EamA; cl17759 589865008077 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 589865008078 EamA-like transporter family; Region: EamA; pfam00892 589865008079 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 589865008080 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 589865008081 active site 589865008082 FMN binding site [chemical binding]; other site 589865008083 substrate binding site [chemical binding]; other site 589865008084 putative catalytic residue [active] 589865008085 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 589865008086 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 589865008087 putative active site [active] 589865008088 putative NTP binding site [chemical binding]; other site 589865008089 putative nucleic acid binding site [nucleotide binding]; other site 589865008090 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 589865008091 integron integrase; Region: integrase_gron; TIGR02249 589865008092 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 589865008093 Int/Topo IB signature motif; other site 589865008094 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 589865008095 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 589865008096 sequence-specific DNA binding site [nucleotide binding]; other site 589865008097 salt bridge; other site 589865008098 GAF domain; Region: GAF_2; pfam13185 589865008099 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 589865008100 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865008101 Zn2+ binding site [ion binding]; other site 589865008102 Mg2+ binding site [ion binding]; other site 589865008103 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 589865008104 metal binding site [ion binding]; metal-binding site 589865008105 active site 589865008106 I-site; other site 589865008107 AAA domain; Region: AAA_30; pfam13604 589865008108 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 589865008109 Family description; Region: UvrD_C_2; pfam13538 589865008110 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 589865008111 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 589865008112 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 589865008113 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 589865008114 MgtE intracellular N domain; Region: MgtE_N; pfam03448 589865008115 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 589865008116 Divalent cation transporter; Region: MgtE; cl00786 589865008117 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 589865008118 active site residue [active] 589865008119 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 589865008120 active site residue [active] 589865008121 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 589865008122 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 589865008123 active site residue [active] 589865008124 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 589865008125 active site residue [active] 589865008126 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865008127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865008128 active site 589865008129 phosphorylation site [posttranslational modification] 589865008130 intermolecular recognition site; other site 589865008131 dimerization interface [polypeptide binding]; other site 589865008132 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 589865008133 Walker A motif; other site 589865008134 ATP binding site [chemical binding]; other site 589865008135 Walker B motif; other site 589865008136 arginine finger; other site 589865008137 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865008138 PAS fold; Region: PAS_4; pfam08448 589865008139 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 589865008140 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865008141 putative active site [active] 589865008142 heme pocket [chemical binding]; other site 589865008143 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 589865008144 dimer interface [polypeptide binding]; other site 589865008145 phosphorylation site [posttranslational modification] 589865008146 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865008147 ATP binding site [chemical binding]; other site 589865008148 Mg2+ binding site [ion binding]; other site 589865008149 G-X-G motif; other site 589865008150 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 589865008151 CPxP motif; other site 589865008152 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 589865008153 active site residue [active] 589865008154 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 589865008155 active site residue [active] 589865008156 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 589865008157 active site residue [active] 589865008158 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 589865008159 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 589865008160 nucleotide binding pocket [chemical binding]; other site 589865008161 K-X-D-G motif; other site 589865008162 catalytic site [active] 589865008163 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 589865008164 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 589865008165 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 589865008166 Dimer interface [polypeptide binding]; other site 589865008167 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 589865008168 active site 1 [active] 589865008169 dimer interface [polypeptide binding]; other site 589865008170 hexamer interface [polypeptide binding]; other site 589865008171 active site 2 [active] 589865008172 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 589865008173 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 589865008174 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 589865008175 Phosphotransferase enzyme family; Region: APH; pfam01636 589865008176 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 589865008177 substrate binding site [chemical binding]; other site 589865008178 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 589865008179 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 589865008180 TrkA-C domain; Region: TrkA_C; pfam02080 589865008181 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 589865008182 TrkA-C domain; Region: TrkA_C; pfam02080 589865008183 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 589865008184 Nif-specific regulatory protein; Region: nifA; TIGR01817 589865008185 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 589865008186 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 589865008187 Walker A motif; other site 589865008188 ATP binding site [chemical binding]; other site 589865008189 Walker B motif; other site 589865008190 arginine finger; other site 589865008191 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865008192 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 589865008193 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 589865008194 Nucleotide-binding sites [chemical binding]; other site 589865008195 Walker A motif; other site 589865008196 Switch I region of nucleotide binding site; other site 589865008197 Fe4S4 binding sites [ion binding]; other site 589865008198 Switch II region of nucleotide binding site; other site 589865008199 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 589865008200 Nitrogen regulatory protein P-II; Region: P-II; smart00938 589865008201 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 589865008202 Nitrogen regulatory protein P-II; Region: P-II; smart00938 589865008203 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 589865008204 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 589865008205 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 589865008206 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 589865008207 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 589865008208 dimer interface [polypeptide binding]; other site 589865008209 [2Fe-2S] cluster binding site [ion binding]; other site 589865008210 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 589865008211 MT-A70; Region: MT-A70; cl01947 589865008212 Transposase [DNA replication, recombination, and repair]; Region: COG5421 589865008213 Type II restriction enzyme MunI; Region: RestrictionMunI; pfam11407 589865008214 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 589865008215 non-specific DNA binding site [nucleotide binding]; other site 589865008216 salt bridge; other site 589865008217 sequence-specific DNA binding site [nucleotide binding]; other site 589865008218 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 589865008219 Patatin-like phospholipase; Region: Patatin; pfam01734 589865008220 active site 589865008221 nucleophile elbow; other site 589865008222 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 589865008223 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 589865008224 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 589865008225 Peptidase family M23; Region: Peptidase_M23; pfam01551 589865008226 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 589865008227 metal binding site 2 [ion binding]; metal-binding site 589865008228 putative DNA binding helix; other site 589865008229 metal binding site 1 [ion binding]; metal-binding site 589865008230 dimer interface [polypeptide binding]; other site 589865008231 structural Zn2+ binding site [ion binding]; other site 589865008232 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 589865008233 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 589865008234 dimer interface [polypeptide binding]; other site 589865008235 active site 589865008236 heme binding site [chemical binding]; other site 589865008237 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 589865008238 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 589865008239 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 589865008240 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 589865008241 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 589865008242 FeS/SAM binding site; other site 589865008243 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 589865008244 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 589865008245 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 589865008246 active site 589865008247 catalytic residues [active] 589865008248 metal binding site [ion binding]; metal-binding site 589865008249 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 589865008250 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 589865008251 homotetramer interface [polypeptide binding]; other site 589865008252 ligand binding site [chemical binding]; other site 589865008253 catalytic site [active] 589865008254 NAD binding site [chemical binding]; other site 589865008255 S-adenosylmethionine synthetase; Validated; Region: PRK05250 589865008256 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 589865008257 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 589865008258 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 589865008259 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 589865008260 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 589865008261 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 589865008262 FAD binding site [chemical binding]; other site 589865008263 asparagine synthetase B; Provisional; Region: asnB; PRK09431 589865008264 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 589865008265 active site 589865008266 dimer interface [polypeptide binding]; other site 589865008267 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 589865008268 Ligand Binding Site [chemical binding]; other site 589865008269 Molecular Tunnel; other site 589865008270 Methyltransferase domain; Region: Methyltransf_25; pfam13649 589865008271 S-adenosylmethionine binding site [chemical binding]; other site 589865008272 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 589865008273 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 589865008274 B12 binding site [chemical binding]; other site 589865008275 cobalt ligand [ion binding]; other site 589865008276 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 589865008277 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 589865008278 substrate binding pocket [chemical binding]; other site 589865008279 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 589865008280 dimer interface [polypeptide binding]; other site 589865008281 inhibitor binding site; inhibition site 589865008282 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 589865008283 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 589865008284 Transcriptional regulators [Transcription]; Region: MarR; COG1846 589865008285 MarR family; Region: MarR_2; cl17246 589865008286 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 589865008287 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 589865008288 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 589865008289 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 589865008290 Clp amino terminal domain; Region: Clp_N; pfam02861 589865008291 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 589865008292 Walker A motif; other site 589865008293 ATP binding site [chemical binding]; other site 589865008294 Walker B motif; other site 589865008295 arginine finger; other site 589865008296 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 589865008297 Walker A motif; other site 589865008298 ATP binding site [chemical binding]; other site 589865008299 Walker B motif; other site 589865008300 arginine finger; other site 589865008301 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 589865008302 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 589865008303 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 589865008304 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 589865008305 HlyD family secretion protein; Region: HlyD_3; pfam13437 589865008306 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 589865008307 Outer membrane efflux protein; Region: OEP; pfam02321 589865008308 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 589865008309 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 589865008310 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865008311 active site 589865008312 phosphorylation site [posttranslational modification] 589865008313 intermolecular recognition site; other site 589865008314 dimerization interface [polypeptide binding]; other site 589865008315 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 589865008316 Walker A motif; other site 589865008317 ATP binding site [chemical binding]; other site 589865008318 Walker B motif; other site 589865008319 arginine finger; other site 589865008320 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 589865008321 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 589865008322 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 589865008323 phosphorylation site [posttranslational modification] 589865008324 dimer interface [polypeptide binding]; other site 589865008325 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865008326 ATP binding site [chemical binding]; other site 589865008327 Mg2+ binding site [ion binding]; other site 589865008328 G-X-G motif; other site 589865008329 Uncharacterized conserved protein [Function unknown]; Region: COG2127 589865008330 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 589865008331 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 589865008332 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 589865008333 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 589865008334 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 589865008335 dimer interface [polypeptide binding]; other site 589865008336 conserved gate region; other site 589865008337 putative PBP binding loops; other site 589865008338 ABC-ATPase subunit interface; other site 589865008339 extended (e) SDRs; Region: SDR_e; cd08946 589865008340 NAD(P) binding site [chemical binding]; other site 589865008341 active site 589865008342 substrate binding site [chemical binding]; other site 589865008343 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 589865008344 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 589865008345 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 589865008346 Response regulator receiver domain; Region: Response_reg; pfam00072 589865008347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865008348 active site 589865008349 phosphorylation site [posttranslational modification] 589865008350 intermolecular recognition site; other site 589865008351 dimerization interface [polypeptide binding]; other site 589865008352 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 589865008353 dimer interface [polypeptide binding]; other site 589865008354 phosphorylation site [posttranslational modification] 589865008355 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865008356 ATP binding site [chemical binding]; other site 589865008357 Mg2+ binding site [ion binding]; other site 589865008358 G-X-G motif; other site 589865008359 Response regulator receiver domain; Region: Response_reg; pfam00072 589865008360 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865008361 active site 589865008362 phosphorylation site [posttranslational modification] 589865008363 intermolecular recognition site; other site 589865008364 dimerization interface [polypeptide binding]; other site 589865008365 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 589865008366 Response regulator receiver domain; Region: Response_reg; pfam00072 589865008367 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865008368 active site 589865008369 phosphorylation site [posttranslational modification] 589865008370 intermolecular recognition site; other site 589865008371 dimerization interface [polypeptide binding]; other site 589865008372 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 589865008373 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 589865008374 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 589865008375 Response regulator receiver domain; Region: Response_reg; pfam00072 589865008376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865008377 active site 589865008378 phosphorylation site [posttranslational modification] 589865008379 intermolecular recognition site; other site 589865008380 dimerization interface [polypeptide binding]; other site 589865008381 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 589865008382 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 589865008383 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 589865008384 transmembrane helices; other site 589865008385 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 589865008386 SnoaL-like domain; Region: SnoaL_3; pfam13474 589865008387 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 589865008388 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 589865008389 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 589865008390 Predicted subunit of the Multisubunit Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: COG1563 589865008391 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 589865008392 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 589865008393 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 589865008394 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 589865008395 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 589865008396 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 589865008397 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 589865008398 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 589865008399 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 589865008400 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 589865008401 NMT1-like family; Region: NMT1_2; pfam13379 589865008402 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 589865008403 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 589865008404 dimer interface [polypeptide binding]; other site 589865008405 conserved gate region; other site 589865008406 putative PBP binding loops; other site 589865008407 ABC-ATPase subunit interface; other site 589865008408 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 589865008409 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 589865008410 Walker A/P-loop; other site 589865008411 ATP binding site [chemical binding]; other site 589865008412 Q-loop/lid; other site 589865008413 ABC transporter signature motif; other site 589865008414 Walker B; other site 589865008415 D-loop; other site 589865008416 H-loop/switch region; other site 589865008417 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 589865008418 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 589865008419 trimer interface [polypeptide binding]; other site 589865008420 eyelet of channel; other site 589865008421 heat shock protein 90; Provisional; Region: PRK05218 589865008422 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865008423 ATP binding site [chemical binding]; other site 589865008424 Mg2+ binding site [ion binding]; other site 589865008425 G-X-G motif; other site 589865008426 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 589865008427 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 589865008428 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 589865008429 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865008430 active site 589865008431 phosphorylation site [posttranslational modification] 589865008432 intermolecular recognition site; other site 589865008433 dimerization interface [polypeptide binding]; other site 589865008434 NMT1-like family; Region: NMT1_2; pfam13379 589865008435 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 589865008436 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 589865008437 putative CheA interaction surface; other site 589865008438 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 589865008439 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 589865008440 inhibitor-cofactor binding pocket; inhibition site 589865008441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865008442 catalytic residue [active] 589865008443 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 589865008444 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 589865008445 ATP synthase subunit C; Region: ATP-synt_C; cl00466 589865008446 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 589865008447 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 589865008448 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 589865008449 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 589865008450 FeS/SAM binding site; other site 589865008451 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 589865008452 IHF dimer interface [polypeptide binding]; other site 589865008453 IHF - DNA interface [nucleotide binding]; other site 589865008454 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 589865008455 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 589865008456 RNA binding surface [nucleotide binding]; other site 589865008457 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 589865008458 active site 589865008459 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 589865008460 PilZ domain; Region: PilZ; pfam07238 589865008461 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 589865008462 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 589865008463 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 589865008464 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 589865008465 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 589865008466 tRNA; other site 589865008467 putative tRNA binding site [nucleotide binding]; other site 589865008468 putative NADP binding site [chemical binding]; other site 589865008469 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 589865008470 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 589865008471 Ribonuclease P; Region: Ribonuclease_P; pfam00825 589865008472 Haemolytic domain; Region: Haemolytic; pfam01809 589865008473 membrane protein insertase; Provisional; Region: PRK01318 589865008474 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 589865008475 catalytic residues [active] 589865008476 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 589865008477 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 589865008478 G-X-X-G motif; other site 589865008479 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 589865008480 RxxxH motif; other site 589865008481 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 589865008482 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 589865008483 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 589865008484 G1 box; other site 589865008485 GTP/Mg2+ binding site [chemical binding]; other site 589865008486 G2 box; other site 589865008487 Switch I region; other site 589865008488 G3 box; other site 589865008489 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 589865008490 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 589865008491 Rubredoxin; Region: Rubredoxin; pfam00301 589865008492 iron binding site [ion binding]; other site 589865008493 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 589865008494 active site 589865008495 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 589865008496 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 589865008497 inhibitor-cofactor binding pocket; inhibition site 589865008498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865008499 catalytic residue [active] 589865008500 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. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 589865008501 Double zinc ribbon; Region: DZR; pfam12773 589865008502 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 589865008503 dimerization interface [polypeptide binding]; other site 589865008504 PAS domain S-box; Region: sensory_box; TIGR00229 589865008505 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865008506 putative active site [active] 589865008507 heme pocket [chemical binding]; other site 589865008508 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 589865008509 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 589865008510 putative active site [active] 589865008511 heme pocket [chemical binding]; other site 589865008512 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 589865008513 dimer interface [polypeptide binding]; other site 589865008514 phosphorylation site [posttranslational modification] 589865008515 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865008516 ATP binding site [chemical binding]; other site 589865008517 Mg2+ binding site [ion binding]; other site 589865008518 G-X-G motif; other site 589865008519 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 589865008520 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865008521 active site 589865008522 phosphorylation site [posttranslational modification] 589865008523 intermolecular recognition site; other site 589865008524 dimerization interface [polypeptide binding]; other site 589865008525 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 589865008526 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 589865008527 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 589865008528 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 589865008529 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 589865008530 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 589865008531 S-adenosylmethionine binding site [chemical binding]; other site 589865008532 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 589865008533 Domain of unknown function DUF20; Region: UPF0118; pfam01594 589865008534 MreB/Mbl protein; Region: MreB_Mbl; pfam06723 589865008535 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 589865008536 nucleotide binding site [chemical binding]; other site 589865008537 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 589865008538 MreB/Mbl protein; Region: MreB_Mbl; pfam06723 589865008539 nucleotide binding site [chemical binding]; other site 589865008540 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 589865008541 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 589865008542 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 589865008543 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 589865008544 catalytic loop [active] 589865008545 iron binding site [ion binding]; other site 589865008546 methylamine methyltransferase corrinoid protein reductive activase; Region: Rama_corrin_act; TIGR04270 589865008547 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 589865008548 Predicted amidohydrolase [General function prediction only]; Region: COG0388 589865008549 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 589865008550 active site 589865008551 catalytic triad [active] 589865008552 dimer interface [polypeptide binding]; other site 589865008553 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 589865008554 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 589865008555 4Fe-4S binding domain; Region: Fer4; pfam00037 589865008556 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 589865008557 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 589865008558 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 589865008559 putative dimerization interface [polypeptide binding]; other site 589865008560 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 589865008561 active site residue [active] 589865008562 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 589865008563 active site residue [active] 589865008564 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 589865008565 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 589865008566 dimer interface [polypeptide binding]; other site 589865008567 putative CheW interface [polypeptide binding]; other site 589865008568 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 589865008569 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 589865008570 dimer interface [polypeptide binding]; other site 589865008571 phosphorylation site [posttranslational modification] 589865008572 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 589865008573 ATP binding site [chemical binding]; other site 589865008574 Mg2+ binding site [ion binding]; other site 589865008575 G-X-G motif; other site 589865008576 Response regulator receiver domain; Region: Response_reg; pfam00072 589865008577 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865008578 active site 589865008579 phosphorylation site [posttranslational modification] 589865008580 intermolecular recognition site; other site 589865008581 dimerization interface [polypeptide binding]; other site 589865008582 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 589865008583 active site residue [active] 589865008584 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 589865008585 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 589865008586 ATP binding site [chemical binding]; other site 589865008587 putative Mg++ binding site [ion binding]; other site 589865008588 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 589865008589 non-specific DNA binding site [nucleotide binding]; other site 589865008590 salt bridge; other site 589865008591 sequence-specific DNA binding site [nucleotide binding]; other site 589865008592 HipA N-terminal domain; Region: Couple_hipA; pfam13657 589865008593 HipA-like N-terminal domain; Region: HipA_N; pfam07805 589865008594 HipA-like C-terminal domain; Region: HipA_C; pfam07804 589865008595 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 589865008596 HsdM N-terminal domain; Region: HsdM_N; pfam12161 589865008597 Methyltransferase domain; Region: Methyltransf_26; pfam13659 589865008598 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 589865008599 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 589865008600 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 589865008601 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 589865008602 Walker A motif; other site 589865008603 ATP binding site [chemical binding]; other site 589865008604 Walker B motif; other site 589865008605 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 589865008606 Integrase core domain; Region: rve; pfam00665 589865008607 Restriction endonuclease; Region: Mrr_cat; pfam04471 589865008608 Transposase, Mutator family; Region: Transposase_mut; pfam00872 589865008609 MULE transposase domain; Region: MULE; pfam10551 589865008610 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 589865008611 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 589865008612 Predicted transcriptional regulator [Transcription]; Region: COG2944 589865008613 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 589865008614 non-specific DNA binding site [nucleotide binding]; other site 589865008615 salt bridge; other site 589865008616 sequence-specific DNA binding site [nucleotide binding]; other site 589865008617 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 589865008618 addiction module antidote protein, HigA family; Region: antidote_HigA; TIGR02607 589865008619 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 589865008620 Mechanosensitive ion channel; Region: MS_channel; pfam00924 589865008621 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 589865008622 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865008623 Zn2+ binding site [ion binding]; other site 589865008624 Mg2+ binding site [ion binding]; other site 589865008625 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 589865008626 synthetase active site [active] 589865008627 NTP binding site [chemical binding]; other site 589865008628 metal binding site [ion binding]; metal-binding site 589865008629 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 589865008630 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 589865008631 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 589865008632 RNB domain; Region: RNB; pfam00773 589865008633 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 589865008634 RNA binding site [nucleotide binding]; other site 589865008635 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 589865008636 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 589865008637 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 589865008638 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 589865008639 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 589865008640 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 589865008641 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 589865008642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3544 589865008643 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]; Region: COG3357 589865008644 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 589865008645 Protein of unknown function (DUF523); Region: DUF523; pfam04463 589865008646 Uncharacterized conserved protein [Function unknown]; Region: COG3272 589865008647 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 589865008648 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 589865008649 putative FMN binding site [chemical binding]; other site 589865008650 NADPH bind site [chemical binding]; other site 589865008651 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 589865008652 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 589865008653 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 589865008654 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 589865008655 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 589865008656 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 589865008657 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 589865008658 S-adenosylmethionine binding site [chemical binding]; other site 589865008659 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 589865008660 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 589865008661 NAD(P) binding site [chemical binding]; other site 589865008662 active site 589865008663 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 589865008664 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 589865008665 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 589865008666 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 589865008667 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 589865008668 Mechanosensitive ion channel; Region: MS_channel; pfam00924 589865008669 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 589865008670 putative active site [active] 589865008671 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 589865008672 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 589865008673 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865008674 Walker A/P-loop; other site 589865008675 ATP binding site [chemical binding]; other site 589865008676 Q-loop/lid; other site 589865008677 ABC transporter signature motif; other site 589865008678 Walker B; other site 589865008679 D-loop; other site 589865008680 H-loop/switch region; other site 589865008681 TOBE domain; Region: TOBE; pfam03459 589865008682 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 589865008683 dimer interface [polypeptide binding]; other site 589865008684 conserved gate region; other site 589865008685 ABC-ATPase subunit interface; other site 589865008686 PBP superfamily domain; Region: PBP_like_2; pfam12849 589865008687 Helix-turn-helix domain; Region: HTH_17; pfam12728 589865008688 PBP superfamily domain; Region: PBP_like; pfam12727 589865008689 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 589865008690 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 589865008691 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 589865008692 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 589865008693 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 589865008694 [4Fe-4S] binding site [ion binding]; other site 589865008695 molybdopterin cofactor binding site; other site 589865008696 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 589865008697 molybdopterin cofactor binding site; other site 589865008698 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 589865008699 metal binding site 2 [ion binding]; metal-binding site 589865008700 putative DNA binding helix; other site 589865008701 metal binding site 1 [ion binding]; metal-binding site 589865008702 dimer interface [polypeptide binding]; other site 589865008703 structural Zn2+ binding site [ion binding]; other site 589865008704 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865008705 Walker A/P-loop; other site 589865008706 ATP binding site [chemical binding]; other site 589865008707 Q-loop/lid; other site 589865008708 ABC transporter signature motif; other site 589865008709 Walker B; other site 589865008710 D-loop; other site 589865008711 H-loop/switch region; other site 589865008712 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 589865008713 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 589865008714 intersubunit interface [polypeptide binding]; other site 589865008715 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 589865008716 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 589865008717 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 589865008718 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 589865008719 Walker A/P-loop; other site 589865008720 ATP binding site [chemical binding]; other site 589865008721 Q-loop/lid; other site 589865008722 ABC transporter signature motif; other site 589865008723 Walker B; other site 589865008724 D-loop; other site 589865008725 H-loop/switch region; other site 589865008726 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 589865008727 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 589865008728 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 589865008729 putative active site [active] 589865008730 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 589865008731 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 589865008732 putative active site [active] 589865008733 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 589865008734 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 589865008735 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 589865008736 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 589865008737 4Fe-4S binding domain; Region: Fer4; pfam00037 589865008738 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 589865008739 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 589865008740 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 589865008741 4Fe-4S binding domain; Region: Fer4; pfam00037 589865008742 PBP superfamily domain; Region: PBP_like_2; cl17296 589865008743 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 589865008744 dimer interface [polypeptide binding]; other site 589865008745 conserved gate region; other site 589865008746 putative PBP binding loops; other site 589865008747 ABC-ATPase subunit interface; other site 589865008748 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 589865008749 dimer interface [polypeptide binding]; other site 589865008750 conserved gate region; other site 589865008751 putative PBP binding loops; other site 589865008752 ABC-ATPase subunit interface; other site 589865008753 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 589865008754 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 589865008755 Walker A/P-loop; other site 589865008756 ATP binding site [chemical binding]; other site 589865008757 Q-loop/lid; other site 589865008758 ABC transporter signature motif; other site 589865008759 Walker B; other site 589865008760 D-loop; other site 589865008761 H-loop/switch region; other site 589865008762 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 589865008763 active site 589865008764 nucleotide binding site [chemical binding]; other site 589865008765 HIGH motif; other site 589865008766 KMSKS motif; other site 589865008767 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 589865008768 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 589865008769 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 589865008770 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 589865008771 active site 589865008772 PHP-associated; Region: PHP_C; pfam13263 589865008773 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 589865008774 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 589865008775 active site residue [active] 589865008776 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 589865008777 Uncharacterized conserved protein [Function unknown]; Region: COG0398 589865008778 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 589865008779 Cysteine-rich domain; Region: CCG; pfam02754 589865008780 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 589865008781 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 589865008782 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 589865008783 putative dimerization interface [polypeptide binding]; other site 589865008784 NosL; Region: NosL; cl01769 589865008785 Methyltransferase domain; Region: Methyltransf_23; pfam13489 589865008786 Methyltransferase domain; Region: Methyltransf_11; pfam08241 589865008787 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 589865008788 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 589865008789 RNA/DNA hybrid binding site [nucleotide binding]; other site 589865008790 active site 589865008791 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 589865008792 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 589865008793 active site 589865008794 Zn binding site [ion binding]; other site 589865008795 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 589865008796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 589865008797 active site 589865008798 phosphorylation site [posttranslational modification] 589865008799 intermolecular recognition site; other site 589865008800 dimerization interface [polypeptide binding]; other site 589865008801 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 589865008802 Zn2+ binding site [ion binding]; other site 589865008803 Mg2+ binding site [ion binding]; other site 589865008804 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 589865008805 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 589865008806 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 589865008807 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 589865008808 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 589865008809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 589865008810 homodimer interface [polypeptide binding]; other site 589865008811 catalytic residue [active] 589865008812 cytidylate kinase; Provisional; Region: cmk; PRK00023 589865008813 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 589865008814 CMP-binding site; other site 589865008815 The sites determining sugar specificity; other site 589865008816 PilZ domain; Region: PilZ; pfam07238 589865008817 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 589865008818 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 589865008819 Walker A/P-loop; other site 589865008820 ATP binding site [chemical binding]; other site 589865008821 Q-loop/lid; other site 589865008822 ABC transporter signature motif; other site 589865008823 Walker B; other site 589865008824 D-loop; other site 589865008825 H-loop/switch region; other site 589865008826 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 589865008827 cobalt transport protein CbiM; Validated; Region: PRK06265 589865008828 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 589865008829 nickel responsive regulator; Provisional; Region: PRK04460 589865008830 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 589865008831 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753