-- dump date 20140619_061152 -- class Genbank::misc_feature -- table misc_feature_note -- id note 871963000001 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 871963000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 871963000003 DnaA N-terminal domain; Region: DnaA_N; pfam11638 871963000004 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 871963000005 Walker A motif; other site 871963000006 ATP binding site [chemical binding]; other site 871963000007 Walker B motif; other site 871963000008 arginine finger; other site 871963000009 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 871963000010 DnaA box-binding interface [nucleotide binding]; other site 871963000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 871963000012 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 871963000013 putative DNA binding surface [nucleotide binding]; other site 871963000014 dimer interface [polypeptide binding]; other site 871963000015 beta-clamp/clamp loader binding surface; other site 871963000016 beta-clamp/translesion DNA polymerase binding surface; other site 871963000017 recombination protein F; Reviewed; Region: recF; PRK00064 871963000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 871963000019 Walker A/P-loop; other site 871963000020 ATP binding site [chemical binding]; other site 871963000021 Q-loop/lid; other site 871963000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963000023 ABC transporter signature motif; other site 871963000024 Walker B; other site 871963000025 D-loop; other site 871963000026 H-loop/switch region; other site 871963000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 871963000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963000029 ATP binding site [chemical binding]; other site 871963000030 Mg2+ binding site [ion binding]; other site 871963000031 G-X-G motif; other site 871963000032 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 871963000033 anchoring element; other site 871963000034 dimer interface [polypeptide binding]; other site 871963000035 ATP binding site [chemical binding]; other site 871963000036 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 871963000037 active site 871963000038 putative metal-binding site [ion binding]; other site 871963000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 871963000040 DNA gyrase subunit A; Validated; Region: PRK05560 871963000041 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 871963000042 CAP-like domain; other site 871963000043 active site 871963000044 primary dimer interface [polypeptide binding]; other site 871963000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 871963000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 871963000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 871963000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 871963000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 871963000050 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 871963000051 conserved cys residue [active] 871963000052 seryl-tRNA synthetase; Provisional; Region: PRK05431 871963000053 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 871963000054 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 871963000055 dimer interface [polypeptide binding]; other site 871963000056 active site 871963000057 motif 1; other site 871963000058 motif 2; other site 871963000059 motif 3; other site 871963000060 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 871963000061 nucleoside/Zn binding site; other site 871963000062 dimer interface [polypeptide binding]; other site 871963000063 catalytic motif [active] 871963000064 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 871963000065 non-specific DNA binding site [nucleotide binding]; other site 871963000066 salt bridge; other site 871963000067 sequence-specific DNA binding site [nucleotide binding]; other site 871963000068 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 871963000069 B12 binding site [chemical binding]; other site 871963000070 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 871963000071 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 871963000072 FeS/SAM binding site; other site 871963000073 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 871963000074 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 871963000075 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 871963000076 Walker A motif; other site 871963000077 ATP binding site [chemical binding]; other site 871963000078 Walker B motif; other site 871963000079 arginine finger; other site 871963000080 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 871963000081 hypothetical protein; Validated; Region: PRK00153 871963000082 recombination protein RecR; Reviewed; Region: recR; PRK00076 871963000083 RecR protein; Region: RecR; pfam02132 871963000084 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 871963000085 putative active site [active] 871963000086 putative metal-binding site [ion binding]; other site 871963000087 tetramer interface [polypeptide binding]; other site 871963000088 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 871963000089 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 871963000090 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 871963000091 dimer interface [polypeptide binding]; other site 871963000092 PYR/PP interface [polypeptide binding]; other site 871963000093 TPP binding site [chemical binding]; other site 871963000094 substrate binding site [chemical binding]; other site 871963000095 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 871963000096 Domain of unknown function; Region: EKR; smart00890 871963000097 4Fe-4S binding domain; Region: Fer4_6; pfam12837 871963000098 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 871963000099 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 871963000100 TPP-binding site [chemical binding]; other site 871963000101 dimer interface [polypeptide binding]; other site 871963000102 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 871963000103 dinuclear metal binding motif [ion binding]; other site 871963000104 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 871963000105 Spore germination protein; Region: Spore_permease; cl17796 871963000106 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 871963000107 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 871963000108 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 871963000109 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 871963000110 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871963000111 catalytic residue [active] 871963000112 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 871963000113 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 871963000114 DNA polymerase III subunit delta'; Validated; Region: PRK08485 871963000115 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 871963000116 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 871963000117 Protein of unknown function (DUF972); Region: DUF972; pfam06156 871963000118 Predicted methyltransferases [General function prediction only]; Region: COG0313 871963000119 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 871963000120 putative SAM binding site [chemical binding]; other site 871963000121 putative homodimer interface [polypeptide binding]; other site 871963000122 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 871963000123 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 871963000124 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 871963000125 active site 871963000126 HIGH motif; other site 871963000127 KMSKS motif; other site 871963000128 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 871963000129 tRNA binding surface [nucleotide binding]; other site 871963000130 anticodon binding site; other site 871963000131 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 871963000132 dimer interface [polypeptide binding]; other site 871963000133 putative tRNA-binding site [nucleotide binding]; other site 871963000134 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 871963000135 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 871963000136 active site 871963000137 G5 domain; Region: G5; pfam07501 871963000138 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 871963000139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 871963000140 Domain of unknown function (DUF348); Region: DUF348; pfam03990 871963000141 Domain of unknown function (DUF348); Region: DUF348; pfam03990 871963000142 Domain of unknown function (DUF348); Region: DUF348; pfam03990 871963000143 G5 domain; Region: G5; pfam07501 871963000144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 871963000145 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 871963000146 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 871963000147 active site 871963000148 metal binding site [ion binding]; metal-binding site 871963000149 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 871963000150 Glyco_18 domain; Region: Glyco_18; smart00636 871963000151 active site 871963000152 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 871963000153 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 871963000154 putative active site [active] 871963000155 putative metal binding site [ion binding]; other site 871963000156 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 871963000157 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 871963000158 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 871963000159 S-adenosylmethionine binding site [chemical binding]; other site 871963000160 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 871963000161 FAD binding site [chemical binding]; other site 871963000162 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 871963000163 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 871963000164 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 871963000165 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 871963000166 dimerization interface [polypeptide binding]; other site 871963000167 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 871963000168 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963000169 dimer interface [polypeptide binding]; other site 871963000170 putative CheW interface [polypeptide binding]; other site 871963000171 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 871963000172 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 871963000173 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 871963000174 active site 871963000175 YabG peptidase U57; Region: Peptidase_U57; pfam05582 871963000176 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 871963000177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 871963000178 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 871963000179 proposed catalytic triad [active] 871963000180 active site nucleophile [active] 871963000181 cyanophycin synthetase; Provisional; Region: PRK14016 871963000182 ATP-grasp domain; Region: ATP-grasp_4; cl17255 871963000183 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 871963000184 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 871963000185 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 871963000186 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 871963000187 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 871963000188 Transcriptional regulators [Transcription]; Region: GntR; COG1802 871963000189 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963000190 DNA-binding site [nucleotide binding]; DNA binding site 871963000191 FCD domain; Region: FCD; pfam07729 871963000192 pur operon repressor; Provisional; Region: PRK09213 871963000193 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 871963000194 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871963000195 active site 871963000196 regulatory protein SpoVG; Reviewed; Region: PRK13259 871963000197 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 871963000198 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 871963000199 Substrate binding site; other site 871963000200 Mg++ binding site; other site 871963000201 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 871963000202 active site 871963000203 substrate binding site [chemical binding]; other site 871963000204 CoA binding site [chemical binding]; other site 871963000205 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 871963000206 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 871963000207 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871963000208 active site 871963000209 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 871963000210 PRC-barrel domain; Region: PRC; pfam05239 871963000211 PRC-barrel domain; Region: PRC; pfam05239 871963000212 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 871963000213 putative active site [active] 871963000214 catalytic residue [active] 871963000215 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 871963000216 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963000217 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 871963000218 DNA binding residues [nucleotide binding] 871963000219 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 871963000220 Protein of unknown function (DUF2872); Region: DUF2872; cl11924 871963000221 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 871963000222 ArsC family; Region: ArsC; pfam03960 871963000223 putative ArsC-like catalytic residues; other site 871963000224 putative TRX-like catalytic residues [active] 871963000225 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 871963000226 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 871963000227 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 871963000228 ATP binding site [chemical binding]; other site 871963000229 putative Mg++ binding site [ion binding]; other site 871963000230 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 871963000231 nucleotide binding region [chemical binding]; other site 871963000232 TRCF domain; Region: TRCF; pfam03461 871963000233 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 871963000234 SurA N-terminal domain; Region: SurA_N_3; cl07813 871963000235 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 871963000236 stage V sporulation protein T; Region: spore_V_T; TIGR02851 871963000237 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 871963000238 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 871963000239 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 871963000240 active site 871963000241 homodimer interface [polypeptide binding]; other site 871963000242 SAM binding site [chemical binding]; other site 871963000243 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 871963000244 homodimer interface [polypeptide binding]; other site 871963000245 metal binding site [ion binding]; metal-binding site 871963000246 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 871963000247 homodimer interface [polypeptide binding]; other site 871963000248 active site 871963000249 putative chemical substrate binding site [chemical binding]; other site 871963000250 metal binding site [ion binding]; metal-binding site 871963000251 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 871963000252 IHF - DNA interface [nucleotide binding]; other site 871963000253 IHF dimer interface [polypeptide binding]; other site 871963000254 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 871963000255 RNA binding surface [nucleotide binding]; other site 871963000256 YabP family; Region: YabP; cl06766 871963000257 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; pfam09578 871963000258 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 871963000259 DNA binding residues [nucleotide binding] 871963000260 hypothetical protein; Provisional; Region: PRK08582 871963000261 S1_RPS1_repeat_hs4: 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_hs4; cd05692 871963000262 RNA binding site [nucleotide binding]; other site 871963000263 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 871963000264 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 871963000265 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 871963000266 Ligand Binding Site [chemical binding]; other site 871963000267 TilS substrate C-terminal domain; Region: TilS_C; smart00977 871963000268 FtsH Extracellular; Region: FtsH_ext; pfam06480 871963000269 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 871963000270 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 871963000271 Walker A motif; other site 871963000272 ATP binding site [chemical binding]; other site 871963000273 Walker B motif; other site 871963000274 arginine finger; other site 871963000275 Peptidase family M41; Region: Peptidase_M41; pfam01434 871963000276 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 871963000277 active site 871963000278 multimer interface [polypeptide binding]; other site 871963000279 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 871963000280 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 871963000281 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 871963000282 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 871963000283 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 871963000284 Potassium binding sites [ion binding]; other site 871963000285 Cesium cation binding sites [ion binding]; other site 871963000286 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963000287 Zn2+ binding site [ion binding]; other site 871963000288 Mg2+ binding site [ion binding]; other site 871963000289 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 871963000290 dihydropteroate synthase; Region: DHPS; TIGR01496 871963000291 substrate binding pocket [chemical binding]; other site 871963000292 dimer interface [polypeptide binding]; other site 871963000293 inhibitor binding site; inhibition site 871963000294 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 871963000295 homooctamer interface [polypeptide binding]; other site 871963000296 active site 871963000297 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 871963000298 catalytic center binding site [active] 871963000299 ATP binding site [chemical binding]; other site 871963000300 Rossmann-like domain; Region: Rossmann-like; pfam10727 871963000301 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 871963000302 pantoate--beta-alanine ligase; Region: panC; TIGR00018 871963000303 Pantoate-beta-alanine ligase; Region: PanC; cd00560 871963000304 active site 871963000305 ATP-binding site [chemical binding]; other site 871963000306 pantoate-binding site; other site 871963000307 HXXH motif; other site 871963000308 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 871963000309 tetramerization interface [polypeptide binding]; other site 871963000310 active site 871963000311 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 871963000312 L-aspartate oxidase; Provisional; Region: PRK06175 871963000313 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 871963000314 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 871963000315 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 871963000316 dimerization interface [polypeptide binding]; other site 871963000317 active site 871963000318 Biotin operon repressor [Transcription]; Region: BirA; COG1654 871963000319 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 871963000320 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 871963000321 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 871963000322 pantothenate kinase; Reviewed; Region: PRK13318 871963000323 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 871963000324 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 871963000325 FMN binding site [chemical binding]; other site 871963000326 active site 871963000327 catalytic residues [active] 871963000328 substrate binding site [chemical binding]; other site 871963000329 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 871963000330 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 871963000331 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 871963000332 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 871963000333 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 871963000334 dimer interface [polypeptide binding]; other site 871963000335 putative anticodon binding site; other site 871963000336 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 871963000337 motif 1; other site 871963000338 active site 871963000339 motif 2; other site 871963000340 motif 3; other site 871963000341 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 871963000342 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963000343 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 871963000344 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 871963000345 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963000346 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 871963000347 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 871963000348 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 871963000349 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 871963000350 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871963000351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 871963000352 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 871963000353 dimerization interface [polypeptide binding]; other site 871963000354 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 871963000355 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 871963000356 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 871963000357 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 871963000358 iron-sulfur cluster [ion binding]; other site 871963000359 [2Fe-2S] cluster binding site [ion binding]; other site 871963000360 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 871963000361 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 871963000362 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 871963000363 PhoU domain; Region: PhoU; pfam01895 871963000364 PhoU domain; Region: PhoU; pfam01895 871963000365 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 871963000366 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 871963000367 DXD motif; other site 871963000368 agmatinase; Region: agmatinase; TIGR01230 871963000369 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 871963000370 putative active site [active] 871963000371 Mn binding site [ion binding]; other site 871963000372 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 871963000373 sequence-specific DNA binding site [nucleotide binding]; other site 871963000374 salt bridge; other site 871963000375 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 871963000376 Protein of unknown function (DUF499); Region: DUF499; pfam04465 871963000377 Protein of unknown function (DUF3780); Region: DUF3780; pfam12635 871963000378 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 871963000379 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 871963000380 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 871963000381 PLD-like domain; Region: PLDc_2; pfam13091 871963000382 putative active site [active] 871963000383 catalytic site [active] 871963000384 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 871963000385 ATP binding site [chemical binding]; other site 871963000386 putative Mg++ binding site [ion binding]; other site 871963000387 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 871963000388 nucleotide binding region [chemical binding]; other site 871963000389 ATP-binding site [chemical binding]; other site 871963000390 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 871963000391 AAA ATPase domain; Region: AAA_15; pfam13175 871963000392 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 871963000393 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 871963000394 putative active site [active] 871963000395 putative metal-binding site [ion binding]; other site 871963000396 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 871963000397 Part of AAA domain; Region: AAA_19; pfam13245 871963000398 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 871963000399 Family description; Region: UvrD_C_2; pfam13538 871963000400 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 871963000401 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 871963000402 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 871963000403 active site 871963000404 Int/Topo IB signature motif; other site 871963000405 catalytic residues [active] 871963000406 DNA binding site [nucleotide binding] 871963000407 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 871963000408 Helix-turn-helix domain; Region: HTH_17; pfam12728 871963000409 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 871963000410 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 871963000411 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 871963000412 Int/Topo IB signature motif; other site 871963000413 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 871963000414 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 871963000415 putative substrate translocation pore; other site 871963000416 Uncharacterized conserved protein [Function unknown]; Region: COG3379 871963000417 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 871963000418 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 871963000419 Domain of unknown function DUF87; Region: DUF87; pfam01935 871963000420 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 871963000421 Ligand Binding Site [chemical binding]; other site 871963000422 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 871963000423 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 871963000424 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 871963000425 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 871963000426 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 871963000427 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 871963000428 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 871963000429 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 871963000430 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 871963000431 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12600 871963000432 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12586 871963000433 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 871963000434 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 871963000435 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 871963000436 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 871963000437 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 871963000438 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871963000439 catalytic residue [active] 871963000440 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 871963000441 spermidine synthase; Provisional; Region: PRK00811 871963000442 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 871963000443 S-adenosylmethionine binding site [chemical binding]; other site 871963000444 Hemerythrin; Region: Hemerythrin; cd12107 871963000445 Fe binding site [ion binding]; other site 871963000446 YtxC-like family; Region: YtxC; pfam08812 871963000447 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 871963000448 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 871963000449 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 871963000450 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 871963000451 active site 871963000452 dimer interface [polypeptide binding]; other site 871963000453 motif 1; other site 871963000454 motif 2; other site 871963000455 motif 3; other site 871963000456 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 871963000457 anticodon binding site; other site 871963000458 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 871963000459 dimerization interface [polypeptide binding]; other site 871963000460 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 871963000461 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963000462 dimer interface [polypeptide binding]; other site 871963000463 putative CheW interface [polypeptide binding]; other site 871963000464 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 871963000465 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 871963000466 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 871963000467 B12 binding site [chemical binding]; other site 871963000468 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 871963000469 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 871963000470 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963000471 ATP binding site [chemical binding]; other site 871963000472 Mg2+ binding site [ion binding]; other site 871963000473 G-X-G motif; other site 871963000474 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 871963000475 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963000476 active site 871963000477 phosphorylation site [posttranslational modification] 871963000478 intermolecular recognition site; other site 871963000479 dimerization interface [polypeptide binding]; other site 871963000480 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 871963000481 Walker A motif; other site 871963000482 ATP binding site [chemical binding]; other site 871963000483 Walker B motif; other site 871963000484 arginine finger; other site 871963000485 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 871963000486 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 871963000487 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 871963000488 FtsX-like permease family; Region: FtsX; pfam02687 871963000489 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 871963000490 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 871963000491 Walker A/P-loop; other site 871963000492 ATP binding site [chemical binding]; other site 871963000493 Q-loop/lid; other site 871963000494 ABC transporter signature motif; other site 871963000495 Walker B; other site 871963000496 D-loop; other site 871963000497 H-loop/switch region; other site 871963000498 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 871963000499 Photosystem P840 reaction-centre cytochrome c-551; Region: Cytochrome-c551; pfam10643 871963000500 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 871963000501 iron-sulfur cluster [ion binding]; other site 871963000502 [2Fe-2S] cluster binding site [ion binding]; other site 871963000503 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 871963000504 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 871963000505 interchain domain interface [polypeptide binding]; other site 871963000506 intrachain domain interface; other site 871963000507 heme bH binding site [chemical binding]; other site 871963000508 Qi binding site; other site 871963000509 heme bL binding site [chemical binding]; other site 871963000510 Qo binding site; other site 871963000511 Cytochrome b(C-terminus)/b6/petD: 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_C; cl00193 871963000512 intrachain domain interface; other site 871963000513 Qo binding site; other site 871963000514 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 871963000515 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 871963000516 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 871963000517 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 871963000518 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 871963000519 NosL; Region: NosL; cl01769 871963000520 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 871963000521 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963000522 Walker A/P-loop; other site 871963000523 ATP binding site [chemical binding]; other site 871963000524 Q-loop/lid; other site 871963000525 ABC transporter signature motif; other site 871963000526 Walker B; other site 871963000527 D-loop; other site 871963000528 H-loop/switch region; other site 871963000529 Ribosomal protein L20 leader 871963000530 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 871963000531 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 871963000532 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 871963000533 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 871963000534 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 871963000535 23S rRNA binding site [nucleotide binding]; other site 871963000536 L21 binding site [polypeptide binding]; other site 871963000537 L13 binding site [polypeptide binding]; other site 871963000538 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 871963000539 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 871963000540 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 871963000541 YqzL-like protein; Region: YqzL; pfam14006 871963000542 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 871963000543 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 871963000544 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 871963000545 dimer interface [polypeptide binding]; other site 871963000546 motif 1; other site 871963000547 active site 871963000548 motif 2; other site 871963000549 motif 3; other site 871963000550 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 871963000551 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 871963000552 putative tRNA-binding site [nucleotide binding]; other site 871963000553 B3/4 domain; Region: B3_4; pfam03483 871963000554 tRNA synthetase B5 domain; Region: B5; smart00874 871963000555 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 871963000556 dimer interface [polypeptide binding]; other site 871963000557 motif 1; other site 871963000558 motif 3; other site 871963000559 motif 2; other site 871963000560 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 871963000561 Cell division protein ZapA; Region: ZapA; cl01146 871963000562 BPG-independent PGAM N-terminus (iPGM_N); Region: iPGM_N; cl17463 871963000563 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 871963000564 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 871963000565 Peptidase family U32; Region: Peptidase_U32; pfam01136 871963000566 Collagenase; Region: DUF3656; pfam12392 871963000567 Peptidase family U32; Region: Peptidase_U32; pfam01136 871963000568 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 871963000569 MutS domain III; Region: MutS_III; pfam05192 871963000570 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 871963000571 Walker A/P-loop; other site 871963000572 ATP binding site [chemical binding]; other site 871963000573 Q-loop/lid; other site 871963000574 ABC transporter signature motif; other site 871963000575 Walker B; other site 871963000576 D-loop; other site 871963000577 H-loop/switch region; other site 871963000578 Smr domain; Region: Smr; pfam01713 871963000579 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 871963000580 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 871963000581 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 871963000582 putative active site [active] 871963000583 putative NTP binding site [chemical binding]; other site 871963000584 putative nucleic acid binding site [nucleotide binding]; other site 871963000585 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 871963000586 Transglycosylase; Region: Transgly; pfam00912 871963000587 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 871963000588 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 871963000589 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 871963000590 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 871963000591 active site 871963000592 HIGH motif; other site 871963000593 dimer interface [polypeptide binding]; other site 871963000594 KMSKS motif; other site 871963000595 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 871963000596 RNA binding surface [nucleotide binding]; other site 871963000597 tRNA pseudouridine synthase A; Reviewed; Region: PRK12434 871963000598 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 871963000599 dimerization interface 3.5A [polypeptide binding]; other site 871963000600 active site 871963000601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 871963000602 YheO-like PAS domain; Region: PAS_6; pfam08348 871963000603 HTH domain; Region: HTH_22; pfam13309 871963000604 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 871963000605 homotrimer interaction site [polypeptide binding]; other site 871963000606 putative active site [active] 871963000607 D-cysteine desulfhydrase; Validated; Region: PRK03910 871963000608 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 871963000609 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871963000610 catalytic residue [active] 871963000611 aspartate racemase; Region: asp_race; TIGR00035 871963000612 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 871963000613 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 871963000614 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 871963000615 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 871963000616 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 871963000617 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 871963000618 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 871963000619 Double zinc ribbon; Region: DZR; pfam12773 871963000620 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 871963000621 Double zinc ribbon; Region: DZR; pfam12773 871963000622 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 871963000623 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 871963000624 Double zinc ribbon; Region: DZR; pfam12773 871963000625 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 871963000626 Double zinc ribbon; Region: DZR; pfam12773 871963000627 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 871963000628 metal ion-dependent adhesion site (MIDAS); other site 871963000629 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 871963000630 metal ion-dependent adhesion site (MIDAS); other site 871963000631 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 871963000632 Predicted membrane protein [Function unknown]; Region: COG4818 871963000633 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 871963000634 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 871963000635 Immunoglobulin domain; Region: Ig; cl11960 871963000636 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 871963000637 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 871963000638 DNA binding residues [nucleotide binding] 871963000639 dimerization interface [polypeptide binding]; other site 871963000640 flagellar motor protein MotA; Validated; Region: PRK08124 871963000641 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 871963000642 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 871963000643 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 871963000644 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 871963000645 ligand binding site [chemical binding]; other site 871963000646 hypothetical protein; Provisional; Region: PRK04164 871963000647 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 871963000648 EamA-like transporter family; Region: EamA; pfam00892 871963000649 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 871963000650 EamA-like transporter family; Region: EamA; pfam00892 871963000651 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 871963000652 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 871963000653 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 871963000654 DNA binding residues [nucleotide binding] 871963000655 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 871963000656 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 871963000657 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 871963000658 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 871963000659 CoA binding domain; Region: CoA_binding; pfam02629 871963000660 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 871963000661 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871963000662 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 871963000663 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 871963000664 active site residue [active] 871963000665 4Fe-4S binding domain; Region: Fer4_5; pfam12801 871963000666 4Fe-4S binding domain; Region: Fer4_5; pfam12801 871963000667 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963000668 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 871963000669 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 871963000670 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 871963000671 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 871963000672 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 871963000673 Cysteine-rich domain; Region: CCG; pfam02754 871963000674 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 871963000675 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 871963000676 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871963000677 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 871963000678 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 871963000679 active site residue [active] 871963000680 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 871963000681 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963000682 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 871963000683 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 871963000684 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 871963000685 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 871963000686 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 871963000687 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 871963000688 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 871963000689 Cysteine-rich domain; Region: CCG; pfam02754 871963000690 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 871963000691 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 871963000692 4Fe-4S binding domain; Region: Fer4_6; pfam12837 871963000693 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 871963000694 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 871963000695 DsrC like protein; Region: DsrC; pfam04358 871963000696 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 871963000697 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 871963000698 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 871963000699 catalytic triad [active] 871963000700 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 871963000701 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 871963000702 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 871963000703 putative dimerization interface [polypeptide binding]; other site 871963000704 Predicted amidohydrolase [General function prediction only]; Region: COG0388 871963000705 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 871963000706 putative active site [active] 871963000707 catalytic triad [active] 871963000708 putative dimer interface [polypeptide binding]; other site 871963000709 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 871963000710 ATP cone domain; Region: ATP-cone; pfam03477 871963000711 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 871963000712 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 871963000713 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 871963000714 active site 871963000715 dimer interface [polypeptide binding]; other site 871963000716 effector binding site; other site 871963000717 TSCPD domain; Region: TSCPD; pfam12637 871963000718 YopX protein; Region: YopX; pfam09643 871963000719 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 871963000720 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 871963000721 HlyD family secretion protein; Region: HlyD_3; pfam13437 871963000722 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 871963000723 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 871963000724 FtsX-like permease family; Region: FtsX; pfam02687 871963000725 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 871963000726 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 871963000727 Walker A/P-loop; other site 871963000728 ATP binding site [chemical binding]; other site 871963000729 Q-loop/lid; other site 871963000730 ABC transporter signature motif; other site 871963000731 Walker B; other site 871963000732 D-loop; other site 871963000733 H-loop/switch region; other site 871963000734 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 871963000735 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 871963000736 Walker A/P-loop; other site 871963000737 ATP binding site [chemical binding]; other site 871963000738 Q-loop/lid; other site 871963000739 ABC transporter signature motif; other site 871963000740 Walker B; other site 871963000741 D-loop; other site 871963000742 H-loop/switch region; other site 871963000743 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 871963000744 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 871963000745 substrate binding pocket [chemical binding]; other site 871963000746 membrane-bound complex binding site; other site 871963000747 hinge residues; other site 871963000748 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871963000749 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 871963000750 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871963000751 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 871963000752 dimer interface [polypeptide binding]; other site 871963000753 conserved gate region; other site 871963000754 putative PBP binding loops; other site 871963000755 ABC-ATPase subunit interface; other site 871963000756 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 871963000757 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 871963000758 Walker A/P-loop; other site 871963000759 ATP binding site [chemical binding]; other site 871963000760 Q-loop/lid; other site 871963000761 ABC transporter signature motif; other site 871963000762 Walker B; other site 871963000763 D-loop; other site 871963000764 H-loop/switch region; other site 871963000765 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 871963000766 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 871963000767 ligand binding site [chemical binding]; other site 871963000768 homodimer interface [polypeptide binding]; other site 871963000769 NAD(P) binding site [chemical binding]; other site 871963000770 trimer interface B [polypeptide binding]; other site 871963000771 trimer interface A [polypeptide binding]; other site 871963000772 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 871963000773 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 871963000774 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 871963000775 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 871963000776 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 871963000777 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963000778 DNA-binding site [nucleotide binding]; DNA binding site 871963000779 UTRA domain; Region: UTRA; pfam07702 871963000780 aminotransferase; Validated; Region: PRK07678 871963000781 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 871963000782 inhibitor-cofactor binding pocket; inhibition site 871963000783 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963000784 catalytic residue [active] 871963000785 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 871963000786 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 871963000787 PYR/PP interface [polypeptide binding]; other site 871963000788 dimer interface [polypeptide binding]; other site 871963000789 TPP binding site [chemical binding]; other site 871963000790 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 871963000791 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 871963000792 TPP-binding site [chemical binding]; other site 871963000793 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871963000794 EamA-like transporter family; Region: EamA; pfam00892 871963000795 EamA-like transporter family; Region: EamA; pfam00892 871963000796 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 871963000797 Methyltransferase domain; Region: Methyltransf_11; pfam08241 871963000798 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 871963000799 EamA-like transporter family; Region: EamA; pfam00892 871963000800 EamA-like transporter family; Region: EamA; pfam00892 871963000801 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 871963000802 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 871963000803 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 871963000804 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 871963000805 salt bridge; other site 871963000806 non-specific DNA binding site [nucleotide binding]; other site 871963000807 sequence-specific DNA binding site [nucleotide binding]; other site 871963000808 YvrJ protein family; Region: YvrJ; pfam12841 871963000809 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 871963000810 amidase catalytic site [active] 871963000811 Zn binding residues [ion binding]; other site 871963000812 substrate binding site [chemical binding]; other site 871963000813 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 871963000814 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 871963000815 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 871963000816 G1 box; other site 871963000817 GTP/Mg2+ binding site [chemical binding]; other site 871963000818 Switch I region; other site 871963000819 G2 box; other site 871963000820 G3 box; other site 871963000821 Switch II region; other site 871963000822 G4 box; other site 871963000823 G5 box; other site 871963000824 Nucleoside recognition; Region: Gate; pfam07670 871963000825 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 871963000826 Nucleoside recognition; Region: Gate; pfam07670 871963000827 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 871963000828 active site 871963000829 NTP binding site [chemical binding]; other site 871963000830 metal binding triad [ion binding]; metal-binding site 871963000831 antibiotic binding site [chemical binding]; other site 871963000832 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 871963000833 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871963000834 Coenzyme A binding pocket [chemical binding]; other site 871963000835 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963000836 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963000837 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963000838 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 871963000839 Putative glucoamylase; Region: Glycoamylase; pfam10091 871963000840 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 871963000841 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 871963000842 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 871963000843 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 871963000844 dinuclear metal binding motif [ion binding]; other site 871963000845 Cache domain; Region: Cache_1; pfam02743 871963000846 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 871963000847 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 871963000848 dimerization interface [polypeptide binding]; other site 871963000849 PAS domain S-box; Region: sensory_box; TIGR00229 871963000850 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 871963000851 putative active site [active] 871963000852 heme pocket [chemical binding]; other site 871963000853 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963000854 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963000855 metal binding site [ion binding]; metal-binding site 871963000856 active site 871963000857 I-site; other site 871963000858 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963000859 Zn2+ binding site [ion binding]; other site 871963000860 Mg2+ binding site [ion binding]; other site 871963000861 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963000862 DNA-binding site [nucleotide binding]; DNA binding site 871963000863 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 871963000864 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 871963000865 Walker A/P-loop; other site 871963000866 ATP binding site [chemical binding]; other site 871963000867 Q-loop/lid; other site 871963000868 ABC transporter signature motif; other site 871963000869 Walker B; other site 871963000870 D-loop; other site 871963000871 H-loop/switch region; other site 871963000872 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963000873 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963000874 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963000875 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 871963000876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 871963000877 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 871963000878 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871963000879 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 871963000880 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 871963000881 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963000882 catalytic residue [active] 871963000883 Restriction endonuclease; Region: Mrr_cat; pfam04471 871963000884 VanZ like family; Region: VanZ; cl01971 871963000885 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 871963000886 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 871963000887 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 871963000888 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 871963000889 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 871963000890 HsdM N-terminal domain; Region: HsdM_N; pfam12161 871963000891 Methyltransferase domain; Region: Methyltransf_26; pfam13659 871963000892 Virulence protein [General function prediction only]; Region: COG3943 871963000893 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 871963000894 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 871963000895 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 871963000896 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 871963000897 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 871963000898 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 871963000899 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 871963000900 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 871963000901 AAA domain; Region: AAA_21; pfam13304 871963000902 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963000903 ABC transporter signature motif; other site 871963000904 Walker B; other site 871963000905 D-loop; other site 871963000906 H-loop/switch region; other site 871963000907 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 871963000908 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 871963000909 DNA binding residues [nucleotide binding] 871963000910 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 871963000911 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 871963000912 MraW methylase family; Region: Methyltransf_5; cl17771 871963000913 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 871963000914 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 871963000915 putative ADP-ribose binding site [chemical binding]; other site 871963000916 putative active site [active] 871963000917 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 871963000918 metal ion-dependent adhesion site (MIDAS); other site 871963000919 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 871963000920 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 871963000921 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 871963000922 Protein of unknown function (DUF524); Region: DUF524; pfam04411 871963000923 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 871963000924 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 871963000925 putative active site [active] 871963000926 DMSO reductase family type II enzyme, molybdopterin subunit; Region: DMSO_red_II_alp; TIGR03479 871963000927 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 871963000928 molybdopterin cofactor binding site; other site 871963000929 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 871963000930 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 871963000931 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 871963000932 molybdopterin cofactor binding site; other site 871963000933 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 871963000934 4Fe-4S binding domain; Region: Fer4; cl02805 871963000935 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 871963000936 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 871963000937 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 871963000938 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 871963000939 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871963000940 catalytic residue [active] 871963000941 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cl00399 871963000942 active site residues [active] 871963000943 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871963000944 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 871963000945 putative substrate translocation pore; other site 871963000946 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 871963000947 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 871963000948 active site 871963000949 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 871963000950 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 871963000951 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 871963000952 dimerization interface [polypeptide binding]; other site 871963000953 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 871963000954 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963000955 dimer interface [polypeptide binding]; other site 871963000956 phosphorylation site [posttranslational modification] 871963000957 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963000958 ATP binding site [chemical binding]; other site 871963000959 Mg2+ binding site [ion binding]; other site 871963000960 G-X-G motif; other site 871963000961 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 871963000962 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963000963 active site 871963000964 phosphorylation site [posttranslational modification] 871963000965 intermolecular recognition site; other site 871963000966 dimerization interface [polypeptide binding]; other site 871963000967 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 871963000968 Walker A motif; other site 871963000969 ATP binding site [chemical binding]; other site 871963000970 Walker B motif; other site 871963000971 arginine finger; other site 871963000972 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 871963000973 Uncharacterized conserved protein [Function unknown]; Region: COG0397 871963000974 hypothetical protein; Validated; Region: PRK00029 871963000975 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 871963000976 S-adenosylmethionine binding site [chemical binding]; other site 871963000977 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 871963000978 catalytic residues [active] 871963000979 Methyltransferase domain; Region: Methyltransf_31; pfam13847 871963000980 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 871963000981 S-adenosylmethionine binding site [chemical binding]; other site 871963000982 Predicted transcriptional regulators [Transcription]; Region: COG1725 871963000983 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963000984 DNA-binding site [nucleotide binding]; DNA binding site 871963000985 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963000986 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 871963000987 Walker A/P-loop; other site 871963000988 ATP binding site [chemical binding]; other site 871963000989 Q-loop/lid; other site 871963000990 ABC transporter signature motif; other site 871963000991 Walker B; other site 871963000992 D-loop; other site 871963000993 H-loop/switch region; other site 871963000994 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 871963000995 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 871963000996 FtsX-like permease family; Region: FtsX; pfam02687 871963000997 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 871963000998 Sodium Bile acid symporter family; Region: SBF; cl17470 871963000999 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 871963001000 L-aspartate oxidase; Provisional; Region: PRK06175 871963001001 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871963001002 4Fe-4S binding domain; Region: Fer4_5; pfam12801 871963001003 4Fe-4S binding domain; Region: Fer4_5; pfam12801 871963001004 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963001005 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 871963001006 SERine Proteinase INhibitors (serpins), prokaryotic subgroup. Little information about specific functions is available for this subgroup, most likely they are inhibitory members of the serpin superfamily. In general, serpins exhibit conformational...; Region: bacterial_SERPIN; cd02049 871963001007 reactive center loop; other site 871963001008 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 871963001009 putative active site [active] 871963001010 PAS fold; Region: PAS_3; pfam08447 871963001011 heme pocket [chemical binding]; other site 871963001012 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963001013 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963001014 metal binding site [ion binding]; metal-binding site 871963001015 active site 871963001016 I-site; other site 871963001017 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 871963001018 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 871963001019 dimerization interface [polypeptide binding]; other site 871963001020 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963001021 dimer interface [polypeptide binding]; other site 871963001022 phosphorylation site [posttranslational modification] 871963001023 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963001024 ATP binding site [chemical binding]; other site 871963001025 Mg2+ binding site [ion binding]; other site 871963001026 G-X-G motif; other site 871963001027 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963001028 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963001029 active site 871963001030 phosphorylation site [posttranslational modification] 871963001031 intermolecular recognition site; other site 871963001032 dimerization interface [polypeptide binding]; other site 871963001033 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 871963001034 DNA binding site [nucleotide binding] 871963001035 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 871963001036 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 871963001037 Walker A/P-loop; other site 871963001038 ATP binding site [chemical binding]; other site 871963001039 Q-loop/lid; other site 871963001040 ABC transporter signature motif; other site 871963001041 Walker B; other site 871963001042 D-loop; other site 871963001043 H-loop/switch region; other site 871963001044 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 871963001045 Protein of unknown function (DUF1453); Region: DUF1453; pfam07301 871963001046 PemK-like protein; Region: PemK; pfam02452 871963001047 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 871963001048 Predicted transcriptional regulators [Transcription]; Region: COG1695 871963001049 Transcriptional regulator PadR-like family; Region: PadR; cl17335 871963001050 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871963001051 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 871963001052 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 871963001053 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 871963001054 H+ Antiporter protein; Region: 2A0121; TIGR00900 871963001055 putative substrate translocation pore; other site 871963001056 FtsX-like permease family; Region: FtsX; pfam02687 871963001057 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 871963001058 FtsX-like permease family; Region: FtsX; pfam02687 871963001059 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 871963001060 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 871963001061 Walker A/P-loop; other site 871963001062 ATP binding site [chemical binding]; other site 871963001063 Q-loop/lid; other site 871963001064 ABC transporter signature motif; other site 871963001065 Walker B; other site 871963001066 D-loop; other site 871963001067 H-loop/switch region; other site 871963001068 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 871963001069 putative substrate translocation pore; other site 871963001070 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871963001071 4Fe-4S binding domain; Region: Fer4_5; pfam12801 871963001072 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 871963001073 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 871963001074 Predicted ATPase [General function prediction only]; Region: COG3910 871963001075 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963001076 ATP-binding cassette domain of non-transporter proteins; Region: ABC_Class2; cd03227 871963001077 Walker A/P-loop; other site 871963001078 Walker A/P-loop; other site 871963001079 ATP binding site [chemical binding]; other site 871963001080 ATP binding site [chemical binding]; other site 871963001081 Q-loop/lid; other site 871963001082 ABC transporter signature motif; other site 871963001083 Walker B; other site 871963001084 D-loop; other site 871963001085 H-loop/switch region; other site 871963001086 This putative domain contains a quite highly conserved sequence of CGGC in its central region; Region: CGGC; smart01078 871963001087 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 871963001088 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 871963001089 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 871963001090 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 871963001091 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 871963001092 YcxB-like protein; Region: YcxB; pfam14317 871963001093 DNA polymerase IV; Reviewed; Region: PRK03103 871963001094 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 871963001095 active site 871963001096 DNA binding site [nucleotide binding] 871963001097 Small Multidrug Resistance protein; Region: Multi_Drug_Res; pfam00893 871963001098 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 871963001099 Nitroreductase-like family 3. 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_3; cd02139 871963001100 putative FMN binding site [chemical binding]; other site 871963001101 Protein of unknown function DUF45; Region: DUF45; pfam01863 871963001102 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 871963001103 Uncharacterized conserved protein [Function unknown]; Region: COG1434 871963001104 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 871963001105 putative active site [active] 871963001106 HlyD family secretion protein; Region: HlyD_3; pfam13437 871963001107 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 871963001108 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 871963001109 Walker A/P-loop; other site 871963001110 ATP binding site [chemical binding]; other site 871963001111 Q-loop/lid; other site 871963001112 ABC transporter signature motif; other site 871963001113 Walker B; other site 871963001114 D-loop; other site 871963001115 H-loop/switch region; other site 871963001116 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 871963001117 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 871963001118 Cl- selectivity filter; other site 871963001119 Cl- binding residues [ion binding]; other site 871963001120 pore gating glutamate residue; other site 871963001121 dimer interface [polypeptide binding]; other site 871963001122 Transglycosylase; Region: Transgly; pfam00912 871963001123 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 871963001124 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 871963001125 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 871963001126 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871963001127 putative substrate translocation pore; other site 871963001128 Rubrerythrin [Energy production and conversion]; Region: COG1592 871963001129 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 871963001130 binuclear metal center [ion binding]; other site 871963001131 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 871963001132 iron binding site [ion binding]; other site 871963001133 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 871963001134 D-galactonate transporter; Region: 2A0114; TIGR00893 871963001135 putative substrate translocation pore; other site 871963001136 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 871963001137 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 871963001138 Ligand Binding Site [chemical binding]; other site 871963001139 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 871963001140 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 871963001141 UvrB/uvrC motif; Region: UVR; pfam02151 871963001142 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 871963001143 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 871963001144 ADP binding site [chemical binding]; other site 871963001145 phosphagen binding site; other site 871963001146 substrate specificity loop; other site 871963001147 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 871963001148 Clp amino terminal domain; Region: Clp_N; pfam02861 871963001149 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 871963001150 Walker A motif; other site 871963001151 ATP binding site [chemical binding]; other site 871963001152 Walker B motif; other site 871963001153 arginine finger; other site 871963001154 UvrB/uvrC motif; Region: UVR; pfam02151 871963001155 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 871963001156 Walker A motif; other site 871963001157 ATP binding site [chemical binding]; other site 871963001158 Walker B motif; other site 871963001159 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 871963001160 DNA repair protein RadA; Provisional; Region: PRK11823 871963001161 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 871963001162 Walker A motif/ATP binding site; other site 871963001163 ATP binding site [chemical binding]; other site 871963001164 Walker B motif; other site 871963001165 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 871963001166 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 871963001167 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 871963001168 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 871963001169 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 871963001170 putative active site [active] 871963001171 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 871963001172 substrate binding site; other site 871963001173 dimer interface; other site 871963001174 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 871963001175 homotrimer interaction site [polypeptide binding]; other site 871963001176 zinc binding site [ion binding]; other site 871963001177 CDP-binding sites; other site 871963001178 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 871963001179 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 871963001180 active site 871963001181 HIGH motif; other site 871963001182 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 871963001183 active site 871963001184 KMSKS motif; other site 871963001185 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 871963001186 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 871963001187 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 871963001188 trimer interface [polypeptide binding]; other site 871963001189 active site 871963001190 substrate binding site [chemical binding]; other site 871963001191 CoA binding site [chemical binding]; other site 871963001192 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 871963001193 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 871963001194 active site 871963001195 HIGH motif; other site 871963001196 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 871963001197 KMSKS motif; other site 871963001198 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 871963001199 tRNA binding surface [nucleotide binding]; other site 871963001200 anticodon binding site; other site 871963001201 Ribonuclease III family protein [Replication, recombination, and repair]; Region: COG1939 871963001202 active site 871963001203 metal binding site [ion binding]; metal-binding site 871963001204 dimerization interface [polypeptide binding]; other site 871963001205 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 871963001206 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 871963001207 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 871963001208 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 871963001209 RNA polymerase factor sigma-70; Validated; Region: PRK08295 871963001210 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963001211 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 871963001212 Staphylococcal nuclease homologues; Region: SNc; smart00318 871963001213 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 871963001214 Catalytic site; other site 871963001215 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 871963001216 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 871963001217 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 871963001218 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 871963001219 putative homodimer interface [polypeptide binding]; other site 871963001220 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 871963001221 heterodimer interface [polypeptide binding]; other site 871963001222 homodimer interface [polypeptide binding]; other site 871963001223 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 871963001224 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 871963001225 23S rRNA interface [nucleotide binding]; other site 871963001226 L7/L12 interface [polypeptide binding]; other site 871963001227 putative thiostrepton binding site; other site 871963001228 L25 interface [polypeptide binding]; other site 871963001229 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 871963001230 mRNA/rRNA interface [nucleotide binding]; other site 871963001231 Ribosomal protein L10 leader 871963001232 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 871963001233 23S rRNA interface [nucleotide binding]; other site 871963001234 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 871963001235 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 871963001236 peripheral dimer interface [polypeptide binding]; other site 871963001237 core dimer interface [polypeptide binding]; other site 871963001238 L10 interface [polypeptide binding]; other site 871963001239 L11 interface [polypeptide binding]; other site 871963001240 putative EF-Tu interaction site [polypeptide binding]; other site 871963001241 putative EF-G interaction site [polypeptide binding]; other site 871963001242 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 871963001243 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 871963001244 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 871963001245 RPB10 interaction site [polypeptide binding]; other site 871963001246 RPB1 interaction site [polypeptide binding]; other site 871963001247 RPB11 interaction site [polypeptide binding]; other site 871963001248 RPB3 interaction site [polypeptide binding]; other site 871963001249 RPB12 interaction site [polypeptide binding]; other site 871963001250 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 871963001251 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 871963001252 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 871963001253 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 871963001254 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 871963001255 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 871963001256 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 871963001257 G-loop; other site 871963001258 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 871963001259 DNA binding site [nucleotide binding] 871963001260 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 871963001261 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 871963001262 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 871963001263 S17 interaction site [polypeptide binding]; other site 871963001264 S8 interaction site; other site 871963001265 16S rRNA interaction site [nucleotide binding]; other site 871963001266 streptomycin interaction site [chemical binding]; other site 871963001267 23S rRNA interaction site [nucleotide binding]; other site 871963001268 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 871963001269 30S ribosomal protein S7; Validated; Region: PRK05302 871963001270 elongation factor G; Reviewed; Region: PRK00007 871963001271 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 871963001272 G1 box; other site 871963001273 putative GEF interaction site [polypeptide binding]; other site 871963001274 GTP/Mg2+ binding site [chemical binding]; other site 871963001275 Switch I region; other site 871963001276 G2 box; other site 871963001277 G3 box; other site 871963001278 Switch II region; other site 871963001279 G4 box; other site 871963001280 G5 box; other site 871963001281 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 871963001282 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 871963001283 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 871963001284 elongation factor Tu; Reviewed; Region: PRK00049 871963001285 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 871963001286 G1 box; other site 871963001287 GEF interaction site [polypeptide binding]; other site 871963001288 GTP/Mg2+ binding site [chemical binding]; other site 871963001289 Switch I region; other site 871963001290 G2 box; other site 871963001291 G3 box; other site 871963001292 Switch II region; other site 871963001293 G4 box; other site 871963001294 G5 box; other site 871963001295 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 871963001296 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 871963001297 Antibiotic Binding Site [chemical binding]; other site 871963001298 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 871963001299 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 871963001300 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 871963001301 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 871963001302 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 871963001303 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 871963001304 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 871963001305 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 871963001306 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 871963001307 putative translocon binding site; other site 871963001308 protein-rRNA interface [nucleotide binding]; other site 871963001309 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 871963001310 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 871963001311 G-X-X-G motif; other site 871963001312 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 871963001313 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 871963001314 23S rRNA interface [nucleotide binding]; other site 871963001315 5S rRNA interface [nucleotide binding]; other site 871963001316 putative antibiotic binding site [chemical binding]; other site 871963001317 L25 interface [polypeptide binding]; other site 871963001318 L27 interface [polypeptide binding]; other site 871963001319 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 871963001320 23S rRNA interface [nucleotide binding]; other site 871963001321 putative translocon interaction site; other site 871963001322 signal recognition particle (SRP54) interaction site; other site 871963001323 L23 interface [polypeptide binding]; other site 871963001324 trigger factor interaction site; other site 871963001325 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 871963001326 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 871963001327 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 871963001328 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 871963001329 RNA binding site [nucleotide binding]; other site 871963001330 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 871963001331 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 871963001332 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 871963001333 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 871963001334 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 871963001335 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 871963001336 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 871963001337 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 871963001338 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 871963001339 5S rRNA interface [nucleotide binding]; other site 871963001340 L27 interface [polypeptide binding]; other site 871963001341 23S rRNA interface [nucleotide binding]; other site 871963001342 L5 interface [polypeptide binding]; other site 871963001343 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 871963001344 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 871963001345 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 871963001346 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 871963001347 23S rRNA binding site [nucleotide binding]; other site 871963001348 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 871963001349 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 871963001350 SecY translocase; Region: SecY; pfam00344 871963001351 adenylate kinase; Reviewed; Region: adk; PRK00279 871963001352 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 871963001353 AMP-binding site [chemical binding]; other site 871963001354 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 871963001355 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 871963001356 active site 871963001357 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 871963001358 rRNA binding site [nucleotide binding]; other site 871963001359 predicted 30S ribosome binding site; other site 871963001360 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 871963001361 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 871963001362 30S ribosomal protein S13; Region: bact_S13; TIGR03631 871963001363 30S ribosomal protein S11; Validated; Region: PRK05309 871963001364 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 871963001365 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 871963001366 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 871963001367 RNA binding surface [nucleotide binding]; other site 871963001368 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 871963001369 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 871963001370 alphaNTD - beta interaction site [polypeptide binding]; other site 871963001371 alphaNTD homodimer interface [polypeptide binding]; other site 871963001372 alphaNTD - beta' interaction site [polypeptide binding]; other site 871963001373 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 871963001374 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 871963001375 putative transposase OrfB; Reviewed; Region: PHA02517 871963001376 HTH-like domain; Region: HTH_21; pfam13276 871963001377 Integrase core domain; Region: rve; pfam00665 871963001378 Integrase core domain; Region: rve_3; pfam13683 871963001379 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 871963001380 Transposase; Region: HTH_Tnp_1; pfam01527 871963001381 Helix-turn-helix domain; Region: HTH_28; pfam13518 871963001382 Winged helix-turn helix; Region: HTH_29; pfam13551 871963001383 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 871963001384 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 871963001385 peptide binding site [polypeptide binding]; other site 871963001386 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 871963001387 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 871963001388 putative PBP binding loops; other site 871963001389 dimer interface [polypeptide binding]; other site 871963001390 ABC-ATPase subunit interface; other site 871963001391 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 871963001392 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 871963001393 dimer interface [polypeptide binding]; other site 871963001394 conserved gate region; other site 871963001395 putative PBP binding loops; other site 871963001396 ABC-ATPase subunit interface; other site 871963001397 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 871963001398 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 871963001399 Walker A/P-loop; other site 871963001400 ATP binding site [chemical binding]; other site 871963001401 Q-loop/lid; other site 871963001402 ABC transporter signature motif; other site 871963001403 Walker B; other site 871963001404 D-loop; other site 871963001405 H-loop/switch region; other site 871963001406 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 871963001407 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 871963001408 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 871963001409 Walker A/P-loop; other site 871963001410 ATP binding site [chemical binding]; other site 871963001411 Q-loop/lid; other site 871963001412 ABC transporter signature motif; other site 871963001413 Walker B; other site 871963001414 D-loop; other site 871963001415 H-loop/switch region; other site 871963001416 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 871963001417 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 871963001418 Part of AAA domain; Region: AAA_19; pfam13245 871963001419 Family description; Region: UvrD_C_2; pfam13538 871963001420 Phosphopantetheine attachment site; Region: PP-binding; cl09936 871963001421 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 871963001422 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963001423 Zn2+ binding site [ion binding]; other site 871963001424 Mg2+ binding site [ion binding]; other site 871963001425 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 871963001426 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 871963001427 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 871963001428 acetyl-CoA synthetase; Provisional; Region: PRK00174 871963001429 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 871963001430 active site 871963001431 CoA binding site [chemical binding]; other site 871963001432 acyl-activating enzyme (AAE) consensus motif; other site 871963001433 AMP binding site [chemical binding]; other site 871963001434 acetate binding site [chemical binding]; other site 871963001435 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 871963001436 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 871963001437 dimerization interface 3.5A [polypeptide binding]; other site 871963001438 active site 871963001439 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 871963001440 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 871963001441 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 871963001442 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 871963001443 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 871963001444 putative [4Fe-4S] binding site [ion binding]; other site 871963001445 putative molybdopterin cofactor binding site [chemical binding]; other site 871963001446 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 871963001447 molybdopterin cofactor binding site; other site 871963001448 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963001449 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 871963001450 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 871963001451 Predicted permeases [General function prediction only]; Region: RarD; COG2962 871963001452 EamA-like transporter family; Region: EamA; pfam00892 871963001453 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 871963001454 Transcriptional regulators [Transcription]; Region: MarR; COG1846 871963001455 MarR family; Region: MarR_2; pfam12802 871963001456 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963001457 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 871963001458 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963001459 DNA-binding site [nucleotide binding]; DNA binding site 871963001460 FCD domain; Region: FCD; pfam07729 871963001461 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 871963001462 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 871963001463 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 871963001464 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 871963001465 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 871963001466 GatB domain; Region: GatB_Yqey; smart00845 871963001467 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 871963001468 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 871963001469 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 871963001470 DctM-like transporters; Region: DctM; pfam06808 871963001471 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 871963001472 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 871963001473 tartrate dehydrogenase; Provisional; Region: PRK08194 871963001474 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 871963001475 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 871963001476 active site 871963001477 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 871963001478 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 871963001479 Cyclic amidohydrolases, including hydantoinase, dihydropyrimidinase, allantoinase, and dihydroorotase, are involved in the metabolism of pyrimidines and purines, sharing the property of hydrolyzing the cyclic amide bond of each substrate to the...; Region: Cyclic_amidohydrolases; cd01302 871963001480 active site 871963001481 tetramer interface [polypeptide binding]; other site 871963001482 malate dehydrogenase; Reviewed; Region: PRK06223 871963001483 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 871963001484 NAD(P) binding site [chemical binding]; other site 871963001485 dimer interface [polypeptide binding]; other site 871963001486 tetramer (dimer of dimers) interface [polypeptide binding]; other site 871963001487 substrate binding site [chemical binding]; other site 871963001488 Predicted amidohydrolase [General function prediction only]; Region: COG0388 871963001489 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 871963001490 active site 871963001491 catalytic triad [active] 871963001492 dimer interface [polypeptide binding]; other site 871963001493 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 871963001494 Predicted amidohydrolase [General function prediction only]; Region: COG0388 871963001495 active site 871963001496 catalytic triad [active] 871963001497 dimer interface [polypeptide binding]; other site 871963001498 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 871963001499 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 871963001500 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 871963001501 Transposase; Region: DEDD_Tnp_IS110; pfam01548 871963001502 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 871963001503 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 871963001504 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 871963001505 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 871963001506 putative [4Fe-4S] binding site [ion binding]; other site 871963001507 putative molybdopterin cofactor binding site [chemical binding]; other site 871963001508 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 871963001509 Protein of unknown function (DUF401); Region: DUF401; cl00830 871963001510 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 871963001511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 871963001512 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 871963001513 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 871963001514 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 871963001515 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 871963001516 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 871963001517 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 871963001518 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 871963001519 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 871963001520 Divergent AAA domain; Region: AAA_4; pfam04326 871963001521 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963001522 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 871963001523 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 871963001524 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 871963001525 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 871963001526 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 871963001527 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 871963001528 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 871963001529 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 871963001530 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 871963001531 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 871963001532 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 871963001533 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 871963001534 Helix-turn-helix domain; Region: HTH_38; pfam13936 871963001535 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 871963001536 Integrase core domain; Region: rve; pfam00665 871963001537 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 871963001538 23S rRNA interface [nucleotide binding]; other site 871963001539 L3 interface [polypeptide binding]; other site 871963001540 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 871963001541 [FeFe] hydrogenase H-cluster radical SAM maturase HydE; Region: rSAM_HydE; TIGR03956 871963001542 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 871963001543 FeS/SAM binding site; other site 871963001544 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 871963001545 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 871963001546 FeS/SAM binding site; other site 871963001547 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 871963001548 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 871963001549 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 871963001550 G1 box; other site 871963001551 GTP/Mg2+ binding site [chemical binding]; other site 871963001552 Switch I region; other site 871963001553 G2 box; other site 871963001554 Switch II region; other site 871963001555 G3 box; other site 871963001556 G4 box; other site 871963001557 G5 box; other site 871963001558 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 871963001559 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 871963001560 active site 871963001561 metal binding site [ion binding]; metal-binding site 871963001562 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 871963001563 YceG-like family; Region: YceG; pfam02618 871963001564 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 871963001565 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963001566 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 871963001567 DNA binding residues [nucleotide binding] 871963001568 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 871963001569 amidohydrolase; Region: amidohydrolases; TIGR01891 871963001570 metal binding site [ion binding]; metal-binding site 871963001571 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 871963001572 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 871963001573 active site 871963001574 metal binding site [ion binding]; metal-binding site 871963001575 DNA binding site [nucleotide binding] 871963001576 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 871963001577 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963001578 AAA domain; Region: AAA_23; pfam13476 871963001579 Walker A/P-loop; other site 871963001580 ATP binding site [chemical binding]; other site 871963001581 Q-loop/lid; other site 871963001582 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 871963001583 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963001584 ABC transporter signature motif; other site 871963001585 Walker B; other site 871963001586 D-loop; other site 871963001587 H-loop/switch region; other site 871963001588 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 871963001589 Uncharacterized conserved protein [Function unknown]; Region: COG2966 871963001590 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 871963001591 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 871963001592 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 871963001593 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963001594 dimer interface [polypeptide binding]; other site 871963001595 phosphorylation site [posttranslational modification] 871963001596 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963001597 ATP binding site [chemical binding]; other site 871963001598 Mg2+ binding site [ion binding]; other site 871963001599 G-X-G motif; other site 871963001600 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963001601 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963001602 active site 871963001603 phosphorylation site [posttranslational modification] 871963001604 intermolecular recognition site; other site 871963001605 dimerization interface [polypeptide binding]; other site 871963001606 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 871963001607 DNA binding site [nucleotide binding] 871963001608 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 871963001609 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 871963001610 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 871963001611 heterotetramer interface [polypeptide binding]; other site 871963001612 active site pocket [active] 871963001613 cleavage site 871963001614 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 871963001615 feedback inhibition sensing region; other site 871963001616 homohexameric interface [polypeptide binding]; other site 871963001617 nucleotide binding site [chemical binding]; other site 871963001618 N-acetyl-L-glutamate binding site [chemical binding]; other site 871963001619 acetylornithine aminotransferase; Provisional; Region: PRK02627 871963001620 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 871963001621 inhibitor-cofactor binding pocket; inhibition site 871963001622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963001623 catalytic residue [active] 871963001624 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 871963001625 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 871963001626 non-specific DNA binding site [nucleotide binding]; other site 871963001627 salt bridge; other site 871963001628 sequence-specific DNA binding site [nucleotide binding]; other site 871963001629 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 871963001630 DsrE/DsrF-like family; Region: DrsE; cl00672 871963001631 Predicted ATPase [General function prediction only]; Region: COG3910 871963001632 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963001633 Walker A/P-loop; other site 871963001634 ATP binding site [chemical binding]; other site 871963001635 Q-loop/lid; other site 871963001636 ABC transporter signature motif; other site 871963001637 Walker B; other site 871963001638 D-loop; other site 871963001639 H-loop/switch region; other site 871963001640 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 871963001641 oligomerization interface [polypeptide binding]; other site 871963001642 active site 871963001643 metal binding site [ion binding]; metal-binding site 871963001644 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 871963001645 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 871963001646 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 871963001647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 871963001648 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 871963001649 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_2; cd03402 871963001650 Cupin domain; Region: Cupin_2; cl17218 871963001651 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 871963001652 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871963001653 putative substrate translocation pore; other site 871963001654 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 871963001655 Double zinc ribbon; Region: DZR; pfam12773 871963001656 Helix-turn-helix domain; Region: HTH_38; pfam13936 871963001657 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 871963001658 Integrase core domain; Region: rve; pfam00665 871963001659 ornithine carbamoyltransferase; Provisional; Region: PRK00779 871963001660 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 871963001661 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 871963001662 argininosuccinate synthase; Provisional; Region: PRK13820 871963001663 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 871963001664 ANP binding site [chemical binding]; other site 871963001665 Substrate Binding Site II [chemical binding]; other site 871963001666 Substrate Binding Site I [chemical binding]; other site 871963001667 argininosuccinate lyase; Provisional; Region: PRK00855 871963001668 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 871963001669 active sites [active] 871963001670 tetramer interface [polypeptide binding]; other site 871963001671 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 871963001672 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 871963001673 active site 871963001674 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 871963001675 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 871963001676 homodimer interface [polypeptide binding]; other site 871963001677 NAD binding pocket [chemical binding]; other site 871963001678 ATP binding pocket [chemical binding]; other site 871963001679 Mg binding site [ion binding]; other site 871963001680 active-site loop [active] 871963001681 Uncharacterized conserved protein [Function unknown]; Region: COG5663 871963001682 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 871963001683 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 871963001684 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 871963001685 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 871963001686 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 871963001687 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 871963001688 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963001689 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 871963001690 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 871963001691 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 871963001692 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 871963001693 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871963001694 catalytic residue [active] 871963001695 YmaF family; Region: YmaF; pfam12788 871963001696 Domain of unknown function (DUF378); Region: DUF378; pfam04070 871963001697 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 871963001698 DEAD-like helicases superfamily; Region: DEXDc; smart00487 871963001699 ATP binding site [chemical binding]; other site 871963001700 Mg++ binding site [ion binding]; other site 871963001701 motif III; other site 871963001702 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 871963001703 nucleotide binding region [chemical binding]; other site 871963001704 ATP-binding site [chemical binding]; other site 871963001705 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 871963001706 LytTr DNA-binding domain; Region: LytTR; smart00850 871963001707 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 871963001708 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 871963001709 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 871963001710 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 871963001711 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871963001712 putative substrate translocation pore; other site 871963001713 Rrf2 family protein; Region: rrf2_super; TIGR00738 871963001714 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 871963001715 putative DNA binding site [nucleotide binding]; other site 871963001716 putative Zn2+ binding site [ion binding]; other site 871963001717 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 871963001718 Domain of unknown function DUF21; Region: DUF21; pfam01595 871963001719 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 871963001720 Transporter associated domain; Region: CorC_HlyC; smart01091 871963001721 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 871963001722 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 871963001723 putative active site [active] 871963001724 putative metal binding site [ion binding]; other site 871963001725 cobalt transport protein CbiM; Validated; Region: PRK06265 871963001726 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 871963001727 PDGLE domain; Region: PDGLE; pfam13190 871963001728 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 871963001729 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 871963001730 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 871963001731 Walker A/P-loop; other site 871963001732 ATP binding site [chemical binding]; other site 871963001733 Q-loop/lid; other site 871963001734 ABC transporter signature motif; other site 871963001735 Walker B; other site 871963001736 D-loop; other site 871963001737 H-loop/switch region; other site 871963001738 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 871963001739 amidase catalytic site [active] 871963001740 Zn binding residues [ion binding]; other site 871963001741 substrate binding site [chemical binding]; other site 871963001742 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 871963001743 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 871963001744 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 871963001745 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 871963001746 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 871963001747 Uncharacterized conserved protein [Function unknown]; Region: COG2006 871963001748 Domain of unknown function (DUF362); Region: DUF362; pfam04015 871963001749 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 871963001750 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 871963001751 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 871963001752 homodimer interface [polypeptide binding]; other site 871963001753 metal binding site [ion binding]; metal-binding site 871963001754 Uncharacterized conserved protein [Function unknown]; Region: COG1624 871963001755 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 871963001756 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 871963001757 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 871963001758 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 871963001759 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 871963001760 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 871963001761 active site 871963001762 substrate binding site [chemical binding]; other site 871963001763 metal binding site [ion binding]; metal-binding site 871963001764 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 871963001765 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 871963001766 glutaminase active site [active] 871963001767 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 871963001768 dimer interface [polypeptide binding]; other site 871963001769 active site 871963001770 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 871963001771 dimer interface [polypeptide binding]; other site 871963001772 active site 871963001773 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 871963001774 Integrase core domain; Region: rve; pfam00665 871963001775 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 871963001776 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 871963001777 Walker A motif; other site 871963001778 ATP binding site [chemical binding]; other site 871963001779 Walker B motif; other site 871963001780 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 871963001781 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 871963001782 Spore germination protein; Region: Spore_permease; cl17796 871963001783 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 871963001784 Transposase domain (DUF772); Region: DUF772; pfam05598 871963001785 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 871963001786 SnoaL-like domain; Region: SnoaL_4; cl17707 871963001787 Domain of unknown function, B. Theta Gene description (DUF3872); Region: DUF3872; pfam12988 871963001788 Protease prsW family; Region: PrsW-protease; pfam13367 871963001789 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 871963001790 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 871963001791 putative active site [active] 871963001792 PhoH-like protein; Region: PhoH; pfam02562 871963001793 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 871963001794 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 871963001795 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 871963001796 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 871963001797 Ligand Binding Site [chemical binding]; other site 871963001798 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 871963001799 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 871963001800 LemA family; Region: LemA; cl00742 871963001801 Repair protein; Region: Repair_PSII; pfam04536 871963001802 Domain of unknown function DUF77; Region: DUF77; pfam01910 871963001803 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871963001804 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 871963001805 dimer interface [polypeptide binding]; other site 871963001806 conserved gate region; other site 871963001807 putative PBP binding loops; other site 871963001808 ABC-ATPase subunit interface; other site 871963001809 NMT1/THI5 like; Region: NMT1; pfam09084 871963001810 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 871963001811 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 871963001812 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 871963001813 Walker A/P-loop; other site 871963001814 ATP binding site [chemical binding]; other site 871963001815 Q-loop/lid; other site 871963001816 ABC transporter signature motif; other site 871963001817 Walker B; other site 871963001818 D-loop; other site 871963001819 H-loop/switch region; other site 871963001820 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871963001821 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 871963001822 ligand binding site [chemical binding]; other site 871963001823 flexible hinge region; other site 871963001824 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 871963001825 non-specific DNA interactions [nucleotide binding]; other site 871963001826 DNA binding site [nucleotide binding] 871963001827 sequence specific DNA binding site [nucleotide binding]; other site 871963001828 putative cAMP binding site [chemical binding]; other site 871963001829 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 871963001830 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963001831 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 871963001832 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 871963001833 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 871963001834 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 871963001835 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 871963001836 ACS interaction site; other site 871963001837 CODH interaction site; other site 871963001838 cubane metal cluster (B-cluster) [ion binding]; other site 871963001839 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 871963001840 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 871963001841 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 871963001842 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871963001843 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 871963001844 TrkA-N domain; Region: TrkA_N; pfam02254 871963001845 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 871963001846 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; cl17747 871963001847 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 871963001848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871963001849 NAD(P) binding site [chemical binding]; other site 871963001850 active site 871963001851 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 871963001852 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 871963001853 active site 871963001854 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 871963001855 Sporulation and spore germination; Region: Germane; pfam10646 871963001856 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_3; cd09321 871963001857 gating phenylalanine in ion channel; other site 871963001858 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871963001859 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 871963001860 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 871963001861 putative dimerization interface [polypeptide binding]; other site 871963001862 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 871963001863 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 871963001864 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 871963001865 dimer interface [polypeptide binding]; other site 871963001866 active site 871963001867 citrylCoA binding site [chemical binding]; other site 871963001868 Citrate synthase; Region: Citrate_synt; pfam00285 871963001869 oxalacetate/citrate binding site [chemical binding]; other site 871963001870 coenzyme A binding site [chemical binding]; other site 871963001871 catalytic triad [active] 871963001872 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 871963001873 benzoate transporter; Region: benE; TIGR00843 871963001874 Accessory gene regulator B; Region: AgrB; pfam04647 871963001875 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 871963001876 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 871963001877 putative active site [active] 871963001878 heme pocket [chemical binding]; other site 871963001879 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963001880 dimer interface [polypeptide binding]; other site 871963001881 phosphorylation site [posttranslational modification] 871963001882 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963001883 ATP binding site [chemical binding]; other site 871963001884 Mg2+ binding site [ion binding]; other site 871963001885 G-X-G motif; other site 871963001886 quinolinate synthetase; Provisional; Region: PRK09375 871963001887 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871963001888 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 871963001889 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 871963001890 dimerization interface [polypeptide binding]; other site 871963001891 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 871963001892 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 871963001893 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 871963001894 benzoate transport; Region: 2A0115; TIGR00895 871963001895 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 871963001896 putative substrate translocation pore; other site 871963001897 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 871963001898 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 871963001899 PYR/PP interface [polypeptide binding]; other site 871963001900 dimer interface [polypeptide binding]; other site 871963001901 TPP binding site [chemical binding]; other site 871963001902 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 871963001903 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 871963001904 TPP-binding site; other site 871963001905 dimer interface [polypeptide binding]; other site 871963001906 SCP-2 sterol transfer family; Region: SCP2; pfam02036 871963001907 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 871963001908 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 871963001909 PYR/PP interface [polypeptide binding]; other site 871963001910 dimer interface [polypeptide binding]; other site 871963001911 TPP binding site [chemical binding]; other site 871963001912 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 871963001913 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 871963001914 TPP-binding site; other site 871963001915 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 871963001916 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 871963001917 putative active site [active] 871963001918 metal binding site [ion binding]; metal-binding site 871963001919 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 871963001920 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 871963001921 NAD(P) binding site [chemical binding]; other site 871963001922 catalytic residues [active] 871963001923 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 871963001924 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 871963001925 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 871963001926 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 871963001927 Mechanosensitive ion channel; Region: MS_channel; pfam00924 871963001928 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 871963001929 dimer interface [polypeptide binding]; other site 871963001930 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 871963001931 dimer interface [polypeptide binding]; other site 871963001932 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 871963001933 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 871963001934 active site 871963001935 dimer interface [polypeptide binding]; other site 871963001936 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 871963001937 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 871963001938 active site 871963001939 FMN binding site [chemical binding]; other site 871963001940 substrate binding site [chemical binding]; other site 871963001941 3Fe-4S cluster binding site [ion binding]; other site 871963001942 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 871963001943 domain interface; other site 871963001944 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 871963001945 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871963001946 Fic/DOC family; Region: Fic; cl00960 871963001947 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 871963001948 Putative transposase; Region: Y2_Tnp; pfam04986 871963001949 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 871963001950 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 871963001951 active site 871963001952 DNA binding site [nucleotide binding] 871963001953 Int/Topo IB signature motif; other site 871963001954 RibD C-terminal domain; Region: RibD_C; cl17279 871963001955 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 871963001956 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 871963001957 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871963001958 Coenzyme A binding pocket [chemical binding]; other site 871963001959 putative acetyltransferase; Provisional; Region: PRK03624 871963001960 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871963001961 Coenzyme A binding pocket [chemical binding]; other site 871963001962 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 871963001963 active site 871963001964 NTP binding site [chemical binding]; other site 871963001965 metal binding triad [ion binding]; metal-binding site 871963001966 antibiotic binding site [chemical binding]; other site 871963001967 Uncharacterized conserved protein [Function unknown]; Region: COG2361 871963001968 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 871963001969 FMN binding site [chemical binding]; other site 871963001970 dimer interface [polypeptide binding]; other site 871963001971 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 871963001972 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 871963001973 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 871963001974 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871963001975 Coenzyme A binding pocket [chemical binding]; other site 871963001976 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 871963001977 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871963001978 Coenzyme A binding pocket [chemical binding]; other site 871963001979 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 871963001980 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 871963001981 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 871963001982 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 871963001983 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 871963001984 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 871963001985 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 871963001986 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 871963001987 Transposase; Region: HTH_Tnp_1; cl17663 871963001988 Domain of unknown function (DUF1900); Region: DUF1900; pfam08954 871963001989 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 871963001990 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 871963001991 Walker A motif; other site 871963001992 ATP binding site [chemical binding]; other site 871963001993 Walker B motif; other site 871963001994 arginine finger; other site 871963001995 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 871963001996 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 871963001997 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 871963001998 enoyl-CoA hydratase; Provisional; Region: PRK06688 871963001999 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 871963002000 substrate binding site [chemical binding]; other site 871963002001 oxyanion hole (OAH) forming residues; other site 871963002002 trimer interface [polypeptide binding]; other site 871963002003 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 871963002004 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 871963002005 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 871963002006 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 871963002007 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 871963002008 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 871963002009 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 871963002010 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 871963002011 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 871963002012 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 871963002013 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 871963002014 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 871963002015 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 871963002016 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 871963002017 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 871963002018 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 871963002019 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 871963002020 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 871963002021 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 871963002022 substrate binding site [chemical binding]; other site 871963002023 oxyanion hole (OAH) forming residues; other site 871963002024 trimer interface [polypeptide binding]; other site 871963002025 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 871963002026 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 871963002027 dimer interface [polypeptide binding]; other site 871963002028 active site 871963002029 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 871963002030 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 871963002031 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 871963002032 acyl-activating enzyme (AAE) consensus motif; other site 871963002033 putative AMP binding site [chemical binding]; other site 871963002034 putative active site [active] 871963002035 putative CoA binding site [chemical binding]; other site 871963002036 Ferredoxin [Energy production and conversion]; Region: COG1146 871963002037 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 871963002038 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 871963002039 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 871963002040 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 871963002041 G1 box; other site 871963002042 GTP/Mg2+ binding site [chemical binding]; other site 871963002043 G2 box; other site 871963002044 Switch I region; other site 871963002045 G3 box; other site 871963002046 Switch II region; other site 871963002047 G4 box; other site 871963002048 G5 box; other site 871963002049 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 871963002050 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 871963002051 putative substrate translocation pore; other site 871963002052 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963002053 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 871963002054 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 871963002055 FMN binding site [chemical binding]; other site 871963002056 dimer interface [polypeptide binding]; other site 871963002057 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 871963002058 FMN binding site [chemical binding]; other site 871963002059 dimer interface [polypeptide binding]; other site 871963002060 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 871963002061 OsmC-like protein; Region: OsmC; pfam02566 871963002062 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871963002063 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 871963002064 Esterase/lipase [General function prediction only]; Region: COG1647 871963002065 PGAP1-like protein; Region: PGAP1; pfam07819 871963002066 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 871963002067 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 871963002068 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 871963002069 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963002070 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 871963002071 DNA binding residues [nucleotide binding] 871963002072 Methyltransferase domain; Region: Methyltransf_31; pfam13847 871963002073 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 871963002074 S-adenosylmethionine binding site [chemical binding]; other site 871963002075 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 871963002076 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 871963002077 FtsX-like permease family; Region: FtsX; pfam02687 871963002078 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 871963002079 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 871963002080 Walker A/P-loop; other site 871963002081 ATP binding site [chemical binding]; other site 871963002082 Q-loop/lid; other site 871963002083 ABC transporter signature motif; other site 871963002084 Walker B; other site 871963002085 D-loop; other site 871963002086 H-loop/switch region; other site 871963002087 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 871963002088 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 871963002089 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 871963002090 Domain of unknown function (DUF4418); Region: DUF4418; pfam14387 871963002091 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 871963002092 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 871963002093 molybdopterin cofactor binding site; other site 871963002094 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 871963002095 molybdopterin cofactor binding site; other site 871963002096 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 871963002097 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 871963002098 Competence protein; Region: Competence; cl00471 871963002099 Uncharacterized family 3; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_3; cd10160 871963002100 putative homodimer interface [polypeptide binding]; other site 871963002101 putative homotetramer interface [polypeptide binding]; other site 871963002102 putative metal binding site [ion binding]; other site 871963002103 putative homodimer-homodimer interface [polypeptide binding]; other site 871963002104 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 871963002105 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 871963002106 Soluble P-type ATPase [General function prediction only]; Region: COG4087 871963002107 hypothetical protein; Provisional; Region: PRK13795 871963002108 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 871963002109 Active Sites [active] 871963002110 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 871963002111 TIGR02687 family protein; Region: TIGR02687 871963002112 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 871963002113 NAD-dependent deacetylase; Provisional; Region: PRK14138 871963002114 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 871963002115 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 871963002116 non-specific DNA binding site [nucleotide binding]; other site 871963002117 salt bridge; other site 871963002118 sequence-specific DNA binding site [nucleotide binding]; other site 871963002119 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 871963002120 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 871963002121 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 871963002122 methionine sulfoxide reductase A; Provisional; Region: PRK14054 871963002123 methionine sulfoxide reductase B; Provisional; Region: PRK00222 871963002124 SelR domain; Region: SelR; pfam01641 871963002125 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 871963002126 dimerization interface [polypeptide binding]; other site 871963002127 putative DNA binding site [nucleotide binding]; other site 871963002128 putative Zn2+ binding site [ion binding]; other site 871963002129 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 871963002130 arsenical-resistance protein; Region: acr3; TIGR00832 871963002131 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 871963002132 Low molecular weight phosphatase family; Region: LMWPc; cd00115 871963002133 active site 871963002134 CO dehydrogenase/acetyl-CoA synthase gamma subunit (corrinoid Fe-S protein) [Energy production and conversion]; Region: CdhE; COG1456 871963002135 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 871963002136 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963002137 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 871963002138 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 871963002139 Nitrogen regulatory protein P-II; Region: P-II; smart00938 871963002140 Nitrogen regulatory protein P-II; Region: P-II; cl00412 871963002141 Nitrogen regulatory protein P-II; Region: P-II; smart00938 871963002142 PAS domain; Region: PAS_10; pfam13596 871963002143 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963002144 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963002145 metal binding site [ion binding]; metal-binding site 871963002146 active site 871963002147 I-site; other site 871963002148 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 871963002149 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 871963002150 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 871963002151 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 871963002152 Propionate catabolism activator; Region: PrpR_N; pfam06506 871963002153 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 871963002154 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 871963002155 Walker A motif; other site 871963002156 ATP binding site [chemical binding]; other site 871963002157 Walker B motif; other site 871963002158 arginine finger; other site 871963002159 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 871963002160 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 871963002161 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 871963002162 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 871963002163 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 871963002164 Dehydratase family; Region: ILVD_EDD; cl00340 871963002165 6-phosphogluconate dehydratase; Region: edd; TIGR01196 871963002166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 871963002167 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 871963002168 4Fe-4S binding domain; Region: Fer4; pfam00037 871963002169 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 871963002170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 871963002171 4Fe-4S binding domain; Region: Fer4; pfam00037 871963002172 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963002173 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 871963002174 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 871963002175 inhibitor site; inhibition site 871963002176 active site 871963002177 dimer interface [polypeptide binding]; other site 871963002178 catalytic residue [active] 871963002179 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 871963002180 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 871963002181 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 871963002182 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 871963002183 dimerization interface [polypeptide binding]; other site 871963002184 ligand binding site [chemical binding]; other site 871963002185 NADP binding site [chemical binding]; other site 871963002186 catalytic site [active] 871963002187 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 871963002188 PAS fold; Region: PAS_3; pfam08447 871963002189 putative active site [active] 871963002190 heme pocket [chemical binding]; other site 871963002191 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963002192 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963002193 metal binding site [ion binding]; metal-binding site 871963002194 active site 871963002195 I-site; other site 871963002196 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 871963002197 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 871963002198 active site 871963002199 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 871963002200 dimer interface [polypeptide binding]; other site 871963002201 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 871963002202 Ligand Binding Site [chemical binding]; other site 871963002203 Molecular Tunnel; other site 871963002204 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 871963002205 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 871963002206 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 871963002207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963002208 active site 871963002209 phosphorylation site [posttranslational modification] 871963002210 intermolecular recognition site; other site 871963002211 dimerization interface [polypeptide binding]; other site 871963002212 ANTAR domain; Region: ANTAR; pfam03861 871963002213 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 871963002214 non-specific DNA binding site [nucleotide binding]; other site 871963002215 salt bridge; other site 871963002216 sequence-specific DNA binding site [nucleotide binding]; other site 871963002217 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 871963002218 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 871963002219 BioY family; Region: BioY; pfam02632 871963002220 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 871963002221 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 871963002222 Walker A/P-loop; other site 871963002223 ATP binding site [chemical binding]; other site 871963002224 Q-loop/lid; other site 871963002225 ABC transporter signature motif; other site 871963002226 Walker B; other site 871963002227 D-loop; other site 871963002228 H-loop/switch region; other site 871963002229 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14250 871963002230 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963002231 Walker A/P-loop; other site 871963002232 ATP binding site [chemical binding]; other site 871963002233 Q-loop/lid; other site 871963002234 ABC transporter signature motif; other site 871963002235 Walker B; other site 871963002236 D-loop; other site 871963002237 H-loop/switch region; other site 871963002238 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 871963002239 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963002240 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963002241 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963002242 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 871963002243 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 871963002244 active site 871963002245 metal binding site [ion binding]; metal-binding site 871963002246 AAA domain; Region: AAA_17; cl17253 871963002247 Uncharacterized conserved protein [Function unknown]; Region: COG4933 871963002248 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 871963002249 aspartate racemase; Region: asp_race; TIGR00035 871963002250 threonine dehydratase; Validated; Region: PRK08639 871963002251 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 871963002252 tetramer interface [polypeptide binding]; other site 871963002253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963002254 catalytic residue [active] 871963002255 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 871963002256 putative Ile/Val binding site [chemical binding]; other site 871963002257 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963002258 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963002259 active site 871963002260 phosphorylation site [posttranslational modification] 871963002261 intermolecular recognition site; other site 871963002262 dimerization interface [polypeptide binding]; other site 871963002263 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 871963002264 DNA binding site [nucleotide binding] 871963002265 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 871963002266 dimerization interface [polypeptide binding]; other site 871963002267 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963002268 dimer interface [polypeptide binding]; other site 871963002269 phosphorylation site [posttranslational modification] 871963002270 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963002271 ATP binding site [chemical binding]; other site 871963002272 Mg2+ binding site [ion binding]; other site 871963002273 G-X-G motif; other site 871963002274 DNA polymerase III PolC; Validated; Region: polC; PRK00448 871963002275 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 871963002276 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 871963002277 generic binding surface II; other site 871963002278 generic binding surface I; other site 871963002279 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 871963002280 active site 871963002281 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 871963002282 active site 871963002283 catalytic site [active] 871963002284 substrate binding site [chemical binding]; other site 871963002285 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 871963002286 2-isopropylmalate synthase; Validated; Region: PRK03739 871963002287 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 871963002288 active site 871963002289 catalytic residues [active] 871963002290 metal binding site [ion binding]; metal-binding site 871963002291 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 871963002292 putative rSAM target protein, CGCGG family; Region: target_X_rSAM; TIGR03995 871963002293 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 871963002294 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963002295 Zn2+ binding site [ion binding]; other site 871963002296 Mg2+ binding site [ion binding]; other site 871963002297 GEMM cis-regulatory element 871963002298 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 871963002299 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 871963002300 non-specific DNA binding site [nucleotide binding]; other site 871963002301 salt bridge; other site 871963002302 sequence-specific DNA binding site [nucleotide binding]; other site 871963002303 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 871963002304 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 871963002305 non-specific DNA binding site [nucleotide binding]; other site 871963002306 salt bridge; other site 871963002307 sequence-specific DNA binding site [nucleotide binding]; other site 871963002308 Cupin domain; Region: Cupin_2; pfam07883 871963002309 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 871963002310 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 871963002311 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 871963002312 inhibitor-cofactor binding pocket; inhibition site 871963002313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963002314 catalytic residue [active] 871963002315 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 871963002316 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 871963002317 Mg++ binding site [ion binding]; other site 871963002318 putative catalytic motif [active] 871963002319 substrate binding site [chemical binding]; other site 871963002320 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 871963002321 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 871963002322 Ligand binding site; other site 871963002323 Dicarboxylate transport; Region: DctA-YdbH; cl14674 871963002324 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 871963002325 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 871963002326 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 871963002327 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 871963002328 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871963002329 catalytic residue [active] 871963002330 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cl07944 871963002331 hexamer interface [polypeptide binding]; other site 871963002332 RNA binding site [nucleotide binding]; other site 871963002333 Histidine-zinc binding site [chemical binding]; other site 871963002334 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 871963002335 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 871963002336 Nitrogen regulatory protein P-II; Region: P-II; smart00938 871963002337 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 871963002338 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 871963002339 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 871963002340 protein binding site [polypeptide binding]; other site 871963002341 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 871963002342 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 871963002343 catalytic residues [active] 871963002344 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 871963002345 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 871963002346 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871963002347 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 871963002348 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 871963002349 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963002350 DNA-binding site [nucleotide binding]; DNA binding site 871963002351 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 871963002352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963002353 homodimer interface [polypeptide binding]; other site 871963002354 catalytic residue [active] 871963002355 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 871963002356 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 871963002357 active site 871963002358 multimer interface [polypeptide binding]; other site 871963002359 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 871963002360 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 871963002361 predicted active site [active] 871963002362 catalytic triad [active] 871963002363 threonine dehydratase; Provisional; Region: PRK08198 871963002364 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 871963002365 tetramer interface [polypeptide binding]; other site 871963002366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963002367 catalytic residue [active] 871963002368 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 871963002369 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 871963002370 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 871963002371 tetramer interface [polypeptide binding]; other site 871963002372 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963002373 catalytic residue [active] 871963002374 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 871963002375 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 871963002376 DNA binding domain, excisionase family; Region: excise; TIGR01764 871963002377 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 871963002378 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 871963002379 DNA binding residues [nucleotide binding] 871963002380 dimerization interface [polypeptide binding]; other site 871963002381 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 871963002382 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 871963002383 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 871963002384 Double zinc ribbon; Region: DZR; pfam12773 871963002385 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 871963002386 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 871963002387 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 871963002388 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 871963002389 DNA binding residues [nucleotide binding] 871963002390 dimer interface [polypeptide binding]; other site 871963002391 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 871963002392 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 871963002393 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 871963002394 ABC transporter; Region: ABC_tran_2; pfam12848 871963002395 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 871963002396 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 871963002397 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 871963002398 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 871963002399 thiosulfate reductase PhsA; Provisional; Region: PRK15488 871963002400 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 871963002401 molybdopterin cofactor binding site; other site 871963002402 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 871963002403 molybdopterin cofactor binding site; other site 871963002404 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 871963002405 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 871963002406 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 871963002407 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 871963002408 GIY-YIG motif/motif A; other site 871963002409 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 871963002410 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 871963002411 Serpentine type 7TM GPCR chemoreceptor Str; Region: 7TM_GPCR_Str; cl11517 871963002412 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 871963002413 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 871963002414 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 871963002415 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963002416 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 871963002417 DNA binding residues [nucleotide binding] 871963002418 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 871963002419 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963002420 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 871963002421 DNA binding residues [nucleotide binding] 871963002422 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 871963002423 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 871963002424 H+ Antiporter protein; Region: 2A0121; TIGR00900 871963002425 putative substrate translocation pore; other site 871963002426 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 871963002427 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 871963002428 ATP-grasp domain; Region: ATP-grasp_4; cl17255 871963002429 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 871963002430 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 871963002431 ATP-grasp domain; Region: ATP-grasp_4; cl17255 871963002432 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 871963002433 IMP binding site; other site 871963002434 dimer interface [polypeptide binding]; other site 871963002435 partial ornithine binding site; other site 871963002436 Predicted integral membrane protein (DUF2275); Region: DUF2275; pfam10039 871963002437 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 871963002438 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 871963002439 metal binding site [ion binding]; metal-binding site 871963002440 dimer interface [polypeptide binding]; other site 871963002441 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 871963002442 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 871963002443 putative substrate translocation pore; other site 871963002444 phosphoenolpyruvate synthase; Validated; Region: PRK06241 871963002445 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 871963002446 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 871963002447 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871963002448 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 871963002449 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 871963002450 classical (c) SDRs; Region: SDR_c; cd05233 871963002451 NAD(P) binding site [chemical binding]; other site 871963002452 active site 871963002453 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 871963002454 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 871963002455 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963002456 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 871963002457 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 871963002458 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 871963002459 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 871963002460 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 871963002461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963002462 active site 871963002463 phosphorylation site [posttranslational modification] 871963002464 intermolecular recognition site; other site 871963002465 dimerization interface [polypeptide binding]; other site 871963002466 LytTr DNA-binding domain; Region: LytTR; pfam04397 871963002467 LemA family; Region: LemA; cl00742 871963002468 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 871963002469 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 871963002470 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963002471 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963002472 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963002473 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 871963002474 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 871963002475 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 871963002476 putative hydratase; Provisional; Region: PRK11413 871963002477 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 871963002478 substrate binding site [chemical binding]; other site 871963002479 ligand binding site [chemical binding]; other site 871963002480 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 871963002481 substrate binding site [chemical binding]; other site 871963002482 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 871963002483 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 871963002484 active site 871963002485 substrate-binding site [chemical binding]; other site 871963002486 metal-binding site [ion binding] 871963002487 ATP binding site [chemical binding]; other site 871963002488 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963002489 G5 domain; Region: G5; pfam07501 871963002490 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 871963002491 Peptidase family M23; Region: Peptidase_M23; pfam01551 871963002492 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 871963002493 Transcriptional regulators [Transcription]; Region: MarR; COG1846 871963002494 MarR family; Region: MarR_2; pfam12802 871963002495 Probable zinc-binding domain; Region: zf-trcl; pfam13451 871963002496 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 871963002497 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 871963002498 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 871963002499 non-specific DNA binding site [nucleotide binding]; other site 871963002500 salt bridge; other site 871963002501 sequence-specific DNA binding site [nucleotide binding]; other site 871963002502 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 871963002503 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 871963002504 Nitrogen regulatory protein P-II; Region: P-II; smart00938 871963002505 Nitrogen regulatory protein P-II; Region: P-II; cl00412 871963002506 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 871963002507 Predicted transcriptional regulator [Transcription]; Region: COG1959 871963002508 Transcriptional regulator; Region: Rrf2; cl17282 871963002509 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 871963002510 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 871963002511 homodimer interface [polypeptide binding]; other site 871963002512 substrate-cofactor binding pocket; other site 871963002513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963002514 catalytic residue [active] 871963002515 Predicted membrane protein [Function unknown]; Region: COG2855 871963002516 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871963002517 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 871963002518 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 871963002519 putative dimerization interface [polypeptide binding]; other site 871963002520 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 871963002521 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 871963002522 dimer interface [polypeptide binding]; other site 871963002523 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963002524 catalytic residue [active] 871963002525 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 871963002526 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 871963002527 DNA polymerase IV; Reviewed; Region: PRK03103 871963002528 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 871963002529 active site 871963002530 DNA binding site [nucleotide binding] 871963002531 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 871963002532 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 871963002533 Na binding site [ion binding]; other site 871963002534 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 871963002535 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 871963002536 ACS interaction site; other site 871963002537 CODH interaction site; other site 871963002538 cubane metal cluster (B-cluster) [ion binding]; other site 871963002539 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 871963002540 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 871963002541 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871963002542 putative substrate translocation pore; other site 871963002543 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 871963002544 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 871963002545 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 871963002546 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 871963002547 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 871963002548 PYR/PP interface [polypeptide binding]; other site 871963002549 dimer interface [polypeptide binding]; other site 871963002550 TPP binding site [chemical binding]; other site 871963002551 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 871963002552 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 871963002553 TPP-binding site [chemical binding]; other site 871963002554 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 871963002555 Na binding site [ion binding]; other site 871963002556 substrate binding site [chemical binding]; other site 871963002557 allantoinase; Provisional; Region: PRK06189 871963002558 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 871963002559 active site 871963002560 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 871963002561 allantoinase; Region: allantoinase; TIGR03178 871963002562 active site 871963002563 allantoate amidohydrolase; Reviewed; Region: PRK09290 871963002564 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 871963002565 active site 871963002566 metal binding site [ion binding]; metal-binding site 871963002567 dimer interface [polypeptide binding]; other site 871963002568 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 871963002569 homotrimer interaction site [polypeptide binding]; other site 871963002570 putative active site [active] 871963002571 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 871963002572 hypothetical protein; Provisional; Region: PRK11171 871963002573 Cupin domain; Region: Cupin_2; cl17218 871963002574 Cupin domain; Region: Cupin_2; cl17218 871963002575 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 871963002576 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 871963002577 NAD(P)H:flavin oxidoreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_2; cd02151 871963002578 putative FMN binding site [chemical binding]; other site 871963002579 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 871963002580 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 871963002581 NodB motif; other site 871963002582 active site 871963002583 catalytic site [active] 871963002584 metal binding site [ion binding]; metal-binding site 871963002585 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 871963002586 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 871963002587 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 871963002588 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 871963002589 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 871963002590 5S rRNA interface [nucleotide binding]; other site 871963002591 CTC domain interface [polypeptide binding]; other site 871963002592 L16 interface [polypeptide binding]; other site 871963002593 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 871963002594 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 871963002595 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 871963002596 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 871963002597 dimerization interface [polypeptide binding]; other site 871963002598 putative DNA binding site [nucleotide binding]; other site 871963002599 putative Zn2+ binding site [ion binding]; other site 871963002600 Methyltransferase domain; Region: Methyltransf_31; pfam13847 871963002601 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 871963002602 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 871963002603 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 871963002604 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 871963002605 substrate binding pocket [chemical binding]; other site 871963002606 membrane-bound complex binding site; other site 871963002607 hinge residues; other site 871963002608 HAMP domain; Region: HAMP; pfam00672 871963002609 PAS domain S-box; Region: sensory_box; TIGR00229 871963002610 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 871963002611 putative active site [active] 871963002612 heme pocket [chemical binding]; other site 871963002613 GAF domain; Region: GAF_2; pfam13185 871963002614 GAF domain; Region: GAF_3; pfam13492 871963002615 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 871963002616 Histidine kinase; Region: HisKA_3; pfam07730 871963002617 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963002618 ATP binding site [chemical binding]; other site 871963002619 Mg2+ binding site [ion binding]; other site 871963002620 G-X-G motif; other site 871963002621 Transposase; Region: DEDD_Tnp_IS110; pfam01548 871963002622 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 871963002623 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 871963002624 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 871963002625 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963002626 active site 871963002627 phosphorylation site [posttranslational modification] 871963002628 intermolecular recognition site; other site 871963002629 dimerization interface [polypeptide binding]; other site 871963002630 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 871963002631 dimerization interface [polypeptide binding]; other site 871963002632 DNA binding residues [nucleotide binding] 871963002633 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 871963002634 4Fe-4S binding domain; Region: Fer4; pfam00037 871963002635 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 871963002636 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 871963002637 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 871963002638 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 871963002639 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 871963002640 molybdopterin cofactor binding site; other site 871963002641 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 871963002642 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 871963002643 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 871963002644 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 871963002645 Low molecular weight phosphatase family; Region: LMWPc; cd00115 871963002646 active site 871963002647 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 871963002648 dimerization interface [polypeptide binding]; other site 871963002649 putative DNA binding site [nucleotide binding]; other site 871963002650 putative Zn2+ binding site [ion binding]; other site 871963002651 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 871963002652 arsenical-resistance protein; Region: acr3; TIGR00832 871963002653 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 871963002654 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 871963002655 catalytic residues [active] 871963002656 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 871963002657 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 871963002658 active site residue [active] 871963002659 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 871963002660 active site residue [active] 871963002661 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 871963002662 Predicted permeases [General function prediction only]; Region: COG0701 871963002663 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 871963002664 dimerization interface [polypeptide binding]; other site 871963002665 putative DNA binding site [nucleotide binding]; other site 871963002666 putative Zn2+ binding site [ion binding]; other site 871963002667 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 871963002668 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 871963002669 4Fe-4S binding domain; Region: Fer4; pfam00037 871963002670 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 871963002671 This CD includes the respiratory arsenate reductase, As(V), catalytic subunit (ArrA) and other related proteins. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_Arsenate-R; cd02757 871963002672 putative [Fe4-S4] binding site [ion binding]; other site 871963002673 putative molybdopterin cofactor binding site [chemical binding]; other site 871963002674 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 871963002675 putative molybdopterin cofactor binding site; other site 871963002676 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 871963002677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963002678 active site 871963002679 phosphorylation site [posttranslational modification] 871963002680 intermolecular recognition site; other site 871963002681 dimerization interface [polypeptide binding]; other site 871963002682 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 871963002683 DNA binding residues [nucleotide binding] 871963002684 dimerization interface [polypeptide binding]; other site 871963002685 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 871963002686 dimerization interface [polypeptide binding]; other site 871963002687 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 871963002688 Histidine kinase; Region: HisKA_3; pfam07730 871963002689 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963002690 ATP binding site [chemical binding]; other site 871963002691 Mg2+ binding site [ion binding]; other site 871963002692 G-X-G motif; other site 871963002693 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 871963002694 PspC domain; Region: PspC; pfam04024 871963002695 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 871963002696 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 871963002697 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 871963002698 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 871963002699 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963002700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963002701 active site 871963002702 phosphorylation site [posttranslational modification] 871963002703 intermolecular recognition site; other site 871963002704 dimerization interface [polypeptide binding]; other site 871963002705 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 871963002706 DNA binding site [nucleotide binding] 871963002707 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 871963002708 PhoU domain; Region: PhoU; pfam01895 871963002709 PhoU domain; Region: PhoU; pfam01895 871963002710 PBP superfamily domain; Region: PBP_like_2; cl17296 871963002711 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 871963002712 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 871963002713 dimer interface [polypeptide binding]; other site 871963002714 conserved gate region; other site 871963002715 putative PBP binding loops; other site 871963002716 ABC-ATPase subunit interface; other site 871963002717 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 871963002718 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 871963002719 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 871963002720 dimer interface [polypeptide binding]; other site 871963002721 conserved gate region; other site 871963002722 putative PBP binding loops; other site 871963002723 ABC-ATPase subunit interface; other site 871963002724 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 871963002725 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 871963002726 Walker A/P-loop; other site 871963002727 ATP binding site [chemical binding]; other site 871963002728 Q-loop/lid; other site 871963002729 ABC transporter signature motif; other site 871963002730 Walker B; other site 871963002731 D-loop; other site 871963002732 H-loop/switch region; other site 871963002733 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 871963002734 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 871963002735 tetramer interface [polypeptide binding]; other site 871963002736 heme binding pocket [chemical binding]; other site 871963002737 NADPH binding site [chemical binding]; other site 871963002738 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 871963002739 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 871963002740 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 871963002741 GIY-YIG motif/motif A; other site 871963002742 active site 871963002743 catalytic site [active] 871963002744 putative DNA binding site [nucleotide binding]; other site 871963002745 metal binding site [ion binding]; metal-binding site 871963002746 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 871963002747 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 871963002748 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 871963002749 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 871963002750 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 871963002751 4Fe-4S binding domain; Region: Fer4; cl02805 871963002752 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 871963002753 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 871963002754 molybdopterin cofactor binding site; other site 871963002755 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 871963002756 molybdopterin cofactor binding site; other site 871963002757 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 871963002758 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 871963002759 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 871963002760 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 871963002761 HAMP domain; Region: HAMP; pfam00672 871963002762 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 871963002763 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963002764 dimer interface [polypeptide binding]; other site 871963002765 phosphorylation site [posttranslational modification] 871963002766 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963002767 ATP binding site [chemical binding]; other site 871963002768 Mg2+ binding site [ion binding]; other site 871963002769 G-X-G motif; other site 871963002770 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963002771 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963002772 active site 871963002773 phosphorylation site [posttranslational modification] 871963002774 intermolecular recognition site; other site 871963002775 dimerization interface [polypeptide binding]; other site 871963002776 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 871963002777 DNA binding site [nucleotide binding] 871963002778 NapD protein; Region: NapD; cl01163 871963002779 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963002780 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 871963002781 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 871963002782 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 871963002783 [4Fe-4S] binding site [ion binding]; other site 871963002784 molybdopterin cofactor binding site; other site 871963002785 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 871963002786 molybdopterin cofactor binding site; other site 871963002787 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 871963002788 4Fe-4S binding domain; Region: Fer4_5; pfam12801 871963002789 4Fe-4S binding domain; Region: Fer4_5; pfam12801 871963002790 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 871963002791 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 871963002792 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 871963002793 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 871963002794 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 871963002795 putative active site [active] 871963002796 catalytic site [active] 871963002797 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 871963002798 putative active site [active] 871963002799 catalytic site [active] 871963002800 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963002801 Transcriptional regulators [Transcription]; Region: MarR; COG1846 871963002802 MarR family; Region: MarR_2; pfam12802 871963002803 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 871963002804 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 871963002805 active site 871963002806 putative homodimer interface [polypeptide binding]; other site 871963002807 SAM binding site [chemical binding]; other site 871963002808 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 871963002809 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 871963002810 S-adenosylmethionine binding site [chemical binding]; other site 871963002811 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 871963002812 active site 871963002813 SAM binding site [chemical binding]; other site 871963002814 homodimer interface [polypeptide binding]; other site 871963002815 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 871963002816 active site 871963002817 SAM binding site [chemical binding]; other site 871963002818 homodimer interface [polypeptide binding]; other site 871963002819 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 871963002820 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 871963002821 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 871963002822 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 871963002823 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 871963002824 homodimer interface [polypeptide binding]; other site 871963002825 active site 871963002826 SAM binding site [chemical binding]; other site 871963002827 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 871963002828 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 871963002829 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 871963002830 putative active site [active] 871963002831 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 871963002832 Precorrin-8X methylmutase; Region: CbiC; pfam02570 871963002833 cobyric acid synthase; Provisional; Region: PRK00784 871963002834 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 871963002835 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 871963002836 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 871963002837 catalytic triad [active] 871963002838 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 871963002839 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 871963002840 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 871963002841 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 871963002842 catalytic triad [active] 871963002843 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 871963002844 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 871963002845 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 871963002846 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 871963002847 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 871963002848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963002849 homodimer interface [polypeptide binding]; other site 871963002850 catalytic residue [active] 871963002851 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 871963002852 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 871963002853 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 871963002854 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 871963002855 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 871963002856 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 871963002857 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963002858 Walker A/P-loop; other site 871963002859 ATP binding site [chemical binding]; other site 871963002860 Q-loop/lid; other site 871963002861 ABC transporter signature motif; other site 871963002862 Walker B; other site 871963002863 D-loop; other site 871963002864 H-loop/switch region; other site 871963002865 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 871963002866 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 871963002867 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963002868 Walker A/P-loop; other site 871963002869 ATP binding site [chemical binding]; other site 871963002870 Q-loop/lid; other site 871963002871 ABC transporter signature motif; other site 871963002872 Walker B; other site 871963002873 D-loop; other site 871963002874 H-loop/switch region; other site 871963002875 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 871963002876 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 871963002877 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 871963002878 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 871963002879 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 871963002880 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 871963002881 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 871963002882 PspC domain; Region: PspC; pfam04024 871963002883 phage shock protein C; Region: phageshock_pspC; TIGR02978 871963002884 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963002885 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963002886 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963002887 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 871963002888 active site 871963002889 FMN binding site [chemical binding]; other site 871963002890 substrate binding site [chemical binding]; other site 871963002891 3Fe-4S cluster binding site [ion binding]; other site 871963002892 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 871963002893 homotrimer interaction site [polypeptide binding]; other site 871963002894 putative active site [active] 871963002895 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 871963002896 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 871963002897 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 871963002898 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 871963002899 dimanganese center [ion binding]; other site 871963002900 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 871963002901 homodimer interaction site [polypeptide binding]; other site 871963002902 cofactor binding site; other site 871963002903 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 871963002904 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 871963002905 active site 1 [active] 871963002906 dimer interface [polypeptide binding]; other site 871963002907 hexamer interface [polypeptide binding]; other site 871963002908 active site 2 [active] 871963002909 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 871963002910 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 871963002911 DNA binding site [nucleotide binding] 871963002912 active site 871963002913 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 871963002914 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 871963002915 active site 871963002916 metal binding site [ion binding]; metal-binding site 871963002917 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 871963002918 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 871963002919 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 871963002920 FeS/SAM binding site; other site 871963002921 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 871963002922 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 871963002923 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963002924 DNA-binding site [nucleotide binding]; DNA binding site 871963002925 TrkA-C domain; Region: TrkA_C; pfam02080 871963002926 GAF domain; Region: GAF; pfam01590 871963002927 Histidine kinase; Region: His_kinase; pfam06580 871963002928 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963002929 ATP binding site [chemical binding]; other site 871963002930 Mg2+ binding site [ion binding]; other site 871963002931 G-X-G motif; other site 871963002932 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 871963002933 putative carbohydrate kinase; Provisional; Region: PRK10565 871963002934 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 871963002935 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 871963002936 putative substrate binding site [chemical binding]; other site 871963002937 putative ATP binding site [chemical binding]; other site 871963002938 alanine racemase; Reviewed; Region: alr; PRK00053 871963002939 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 871963002940 active site 871963002941 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 871963002942 dimer interface [polypeptide binding]; other site 871963002943 substrate binding site [chemical binding]; other site 871963002944 catalytic residues [active] 871963002945 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 871963002946 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_13; cd12178 871963002947 putative ligand binding site [chemical binding]; other site 871963002948 putative NAD binding site [chemical binding]; other site 871963002949 catalytic site [active] 871963002950 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 871963002951 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 871963002952 trimer interface [polypeptide binding]; other site 871963002953 putative metal binding site [ion binding]; other site 871963002954 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 871963002955 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 871963002956 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 871963002957 catalytic triad [active] 871963002958 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 871963002959 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 871963002960 PemK-like protein; Region: PemK; pfam02452 871963002961 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 871963002962 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 871963002963 catalytic triad [active] 871963002964 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 871963002965 GAF domain; Region: GAF_3; pfam13492 871963002966 GAF domain; Region: GAF_2; pfam13185 871963002967 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 871963002968 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 871963002969 Walker A motif; other site 871963002970 ATP binding site [chemical binding]; other site 871963002971 Walker B motif; other site 871963002972 arginine finger; other site 871963002973 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 871963002974 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 871963002975 FMN binding site [chemical binding]; other site 871963002976 dimer interface [polypeptide binding]; other site 871963002977 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 871963002978 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 871963002979 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 871963002980 dimerization interface [polypeptide binding]; other site 871963002981 putative DNA binding site [nucleotide binding]; other site 871963002982 putative Zn2+ binding site [ion binding]; other site 871963002983 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 871963002984 metal-binding site [ion binding] 871963002985 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 871963002986 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 871963002987 Soluble P-type ATPase [General function prediction only]; Region: COG4087 871963002988 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 871963002989 dimerization interface [polypeptide binding]; other site 871963002990 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963002991 dimer interface [polypeptide binding]; other site 871963002992 phosphorylation site [posttranslational modification] 871963002993 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963002994 ATP binding site [chemical binding]; other site 871963002995 Mg2+ binding site [ion binding]; other site 871963002996 G-X-G motif; other site 871963002997 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963002998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963002999 active site 871963003000 phosphorylation site [posttranslational modification] 871963003001 intermolecular recognition site; other site 871963003002 dimerization interface [polypeptide binding]; other site 871963003003 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 871963003004 DNA binding site [nucleotide binding] 871963003005 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 871963003006 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 871963003007 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 871963003008 Walker A/P-loop; other site 871963003009 ATP binding site [chemical binding]; other site 871963003010 Q-loop/lid; other site 871963003011 ABC transporter signature motif; other site 871963003012 Walker B; other site 871963003013 D-loop; other site 871963003014 H-loop/switch region; other site 871963003015 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 871963003016 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 871963003017 FtsX-like permease family; Region: FtsX; pfam02687 871963003018 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 871963003019 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 871963003020 FtsX-like permease family; Region: FtsX; pfam02687 871963003021 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 871963003022 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 871963003023 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 871963003024 B12 binding site [chemical binding]; other site 871963003025 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 871963003026 Radical SAM superfamily; Region: Radical_SAM; pfam04055 871963003027 FeS/SAM binding site; other site 871963003028 Methyltransferase domain; Region: Methyltransf_23; pfam13489 871963003029 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 871963003030 S-adenosylmethionine binding site [chemical binding]; other site 871963003031 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 871963003032 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 871963003033 FeS/SAM binding site; other site 871963003034 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 871963003035 B12 binding site [chemical binding]; other site 871963003036 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 871963003037 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 871963003038 FeS/SAM binding site; other site 871963003039 B12 binding domain; Region: B12-binding; pfam02310 871963003040 B12 binding site [chemical binding]; other site 871963003041 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 871963003042 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 871963003043 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 871963003044 active site residue [active] 871963003045 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 871963003046 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 871963003047 Walker A/P-loop; other site 871963003048 ATP binding site [chemical binding]; other site 871963003049 Q-loop/lid; other site 871963003050 ABC transporter signature motif; other site 871963003051 Walker B; other site 871963003052 D-loop; other site 871963003053 H-loop/switch region; other site 871963003054 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871963003055 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 871963003056 dimer interface [polypeptide binding]; other site 871963003057 conserved gate region; other site 871963003058 putative PBP binding loops; other site 871963003059 ABC-ATPase subunit interface; other site 871963003060 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 871963003061 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 871963003062 substrate binding pocket [chemical binding]; other site 871963003063 membrane-bound complex binding site; other site 871963003064 hinge residues; other site 871963003065 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 871963003066 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 871963003067 dimer interface [polypeptide binding]; other site 871963003068 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963003069 catalytic residue [active] 871963003070 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 871963003071 Predicted membrane protein [Function unknown]; Region: COG3462 871963003072 Short C-terminal domain; Region: SHOCT; pfam09851 871963003073 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 871963003074 dimerization interface [polypeptide binding]; other site 871963003075 putative DNA binding site [nucleotide binding]; other site 871963003076 putative Zn2+ binding site [ion binding]; other site 871963003077 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 871963003078 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 871963003079 dimerization interface [polypeptide binding]; other site 871963003080 putative DNA binding site [nucleotide binding]; other site 871963003081 putative Zn2+ binding site [ion binding]; other site 871963003082 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 871963003083 metal-binding site [ion binding] 871963003084 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 871963003085 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 871963003086 Soluble P-type ATPase [General function prediction only]; Region: COG4087 871963003087 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 871963003088 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 871963003089 dimerization interface [polypeptide binding]; other site 871963003090 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963003091 dimer interface [polypeptide binding]; other site 871963003092 phosphorylation site [posttranslational modification] 871963003093 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963003094 ATP binding site [chemical binding]; other site 871963003095 Mg2+ binding site [ion binding]; other site 871963003096 G-X-G motif; other site 871963003097 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963003098 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963003099 active site 871963003100 phosphorylation site [posttranslational modification] 871963003101 intermolecular recognition site; other site 871963003102 dimerization interface [polypeptide binding]; other site 871963003103 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 871963003104 DNA binding site [nucleotide binding] 871963003105 Protein of unknown function (DUF2630); Region: DUF2630; pfam10944 871963003106 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 871963003107 Cytochrome C biogenesis protein; Region: CcmH; cl01179 871963003108 CcmE; Region: CcmE; cl00994 871963003109 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 871963003110 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 871963003111 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 871963003112 Walker A/P-loop; other site 871963003113 ATP binding site [chemical binding]; other site 871963003114 Q-loop/lid; other site 871963003115 ABC transporter signature motif; other site 871963003116 Walker B; other site 871963003117 D-loop; other site 871963003118 H-loop/switch region; other site 871963003119 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmB; COG2386 871963003120 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 871963003121 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 871963003122 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 871963003123 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963003124 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 871963003125 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 871963003126 dimerization interface [polypeptide binding]; other site 871963003127 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963003128 dimer interface [polypeptide binding]; other site 871963003129 phosphorylation site [posttranslational modification] 871963003130 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963003131 ATP binding site [chemical binding]; other site 871963003132 Mg2+ binding site [ion binding]; other site 871963003133 G-X-G motif; other site 871963003134 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963003135 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963003136 active site 871963003137 phosphorylation site [posttranslational modification] 871963003138 intermolecular recognition site; other site 871963003139 dimerization interface [polypeptide binding]; other site 871963003140 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 871963003141 DNA binding site [nucleotide binding] 871963003142 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 871963003143 NlpC/P60 family; Region: NLPC_P60; pfam00877 871963003144 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 871963003145 S-adenosylmethionine binding site [chemical binding]; other site 871963003146 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 871963003147 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 871963003148 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 871963003149 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 871963003150 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963003151 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963003152 metal binding site [ion binding]; metal-binding site 871963003153 active site 871963003154 I-site; other site 871963003155 CcmE; Region: CcmE; cl00994 871963003156 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 871963003157 Cytochrome C biogenesis protein; Region: CcmH; cl01179 871963003158 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 871963003159 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963003160 Walker A/P-loop; other site 871963003161 ATP binding site [chemical binding]; other site 871963003162 Q-loop/lid; other site 871963003163 ABC transporter signature motif; other site 871963003164 Walker B; other site 871963003165 D-loop; other site 871963003166 H-loop/switch region; other site 871963003167 CcmB protein; Region: CcmB; cl17444 871963003168 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 871963003169 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 871963003170 phage shock protein A; Region: phageshock_pspA; TIGR02977 871963003171 Tim44-like domain; Region: Tim44; cl09208 871963003172 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 871963003173 phage shock protein A; Region: phageshock_pspA; TIGR02977 871963003174 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 871963003175 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963003176 Zn2+ binding site [ion binding]; other site 871963003177 Mg2+ binding site [ion binding]; other site 871963003178 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963003179 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963003180 metal binding site [ion binding]; metal-binding site 871963003181 active site 871963003182 I-site; other site 871963003183 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 871963003184 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 871963003185 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 871963003186 dimerization interface [polypeptide binding]; other site 871963003187 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963003188 dimer interface [polypeptide binding]; other site 871963003189 putative CheW interface [polypeptide binding]; other site 871963003190 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 871963003191 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 871963003192 putative homodimer interface [polypeptide binding]; other site 871963003193 putative homotetramer interface [polypeptide binding]; other site 871963003194 allosteric switch controlling residues; other site 871963003195 putative metal binding site [ion binding]; other site 871963003196 putative homodimer-homodimer interface [polypeptide binding]; other site 871963003197 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 871963003198 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 871963003199 metal-binding site [ion binding] 871963003200 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 871963003201 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 871963003202 metal-binding site [ion binding] 871963003203 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 871963003204 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 871963003205 motif II; other site 871963003206 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 871963003207 metal-binding site [ion binding] 871963003208 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 871963003209 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 871963003210 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 871963003211 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 871963003212 putative ATP binding site [chemical binding]; other site 871963003213 putative substrate interface [chemical binding]; other site 871963003214 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 871963003215 NAD binding site [chemical binding]; other site 871963003216 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 871963003217 active site 871963003218 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 871963003219 Predicted membrane protein [Function unknown]; Region: COG2364 871963003220 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 871963003221 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 871963003222 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 871963003223 Ligand Binding Site [chemical binding]; other site 871963003224 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 871963003225 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 871963003226 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 871963003227 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 871963003228 RNA binding site [nucleotide binding]; other site 871963003229 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 871963003230 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_C; cd01309 871963003231 active site 871963003232 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 871963003233 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 871963003234 Glycoprotease family; Region: Peptidase_M22; pfam00814 871963003235 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 871963003236 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871963003237 Coenzyme A binding pocket [chemical binding]; other site 871963003238 UGMP family protein; Validated; Region: PRK09604 871963003239 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 871963003240 Membrane transport protein; Region: Mem_trans; cl09117 871963003241 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 871963003242 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 871963003243 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 871963003244 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 871963003245 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 871963003246 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 871963003247 putative dimer interface [polypeptide binding]; other site 871963003248 [2Fe-2S] cluster binding site [ion binding]; other site 871963003249 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 871963003250 dimer interface [polypeptide binding]; other site 871963003251 [2Fe-2S] cluster binding site [ion binding]; other site 871963003252 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 871963003253 SLBB domain; Region: SLBB; pfam10531 871963003254 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 871963003255 4Fe-4S binding domain; Region: Fer4; pfam00037 871963003256 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963003257 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 871963003258 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 871963003259 catalytic loop [active] 871963003260 iron binding site [ion binding]; other site 871963003261 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 871963003262 4Fe-4S binding domain; Region: Fer4; cl02805 871963003263 4Fe-4S binding domain; Region: Fer4; pfam00037 871963003264 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 871963003265 [4Fe-4S] binding site [ion binding]; other site 871963003266 molybdopterin cofactor binding site; other site 871963003267 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 871963003268 molybdopterin cofactor binding site; other site 871963003269 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 871963003270 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 871963003271 GTP binding site; other site 871963003272 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 871963003273 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 871963003274 FeS/SAM binding site; other site 871963003275 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 871963003276 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 871963003277 trimer interface [polypeptide binding]; other site 871963003278 dimer interface [polypeptide binding]; other site 871963003279 putative active site [active] 871963003280 MOSC domain; Region: MOSC; pfam03473 871963003281 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 871963003282 MPT binding site; other site 871963003283 trimer interface [polypeptide binding]; other site 871963003284 LabA_like proteins; Region: LabA_like; cd06167 871963003285 putative metal binding site [ion binding]; other site 871963003286 Uncharacterized conserved protein [Function unknown]; Region: COG1432 871963003287 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 871963003288 oligomerisation interface [polypeptide binding]; other site 871963003289 mobile loop; other site 871963003290 roof hairpin; other site 871963003291 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 871963003292 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 871963003293 ring oligomerisation interface [polypeptide binding]; other site 871963003294 ATP/Mg binding site [chemical binding]; other site 871963003295 stacking interactions; other site 871963003296 hinge regions; other site 871963003297 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 871963003298 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871963003299 active site 871963003300 GMP synthase; Reviewed; Region: guaA; PRK00074 871963003301 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 871963003302 AMP/PPi binding site [chemical binding]; other site 871963003303 candidate oxyanion hole; other site 871963003304 catalytic triad [active] 871963003305 potential glutamine specificity residues [chemical binding]; other site 871963003306 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 871963003307 ATP Binding subdomain [chemical binding]; other site 871963003308 Ligand Binding sites [chemical binding]; other site 871963003309 Dimerization subdomain; other site 871963003310 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 871963003311 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 871963003312 non-specific DNA binding site [nucleotide binding]; other site 871963003313 salt bridge; other site 871963003314 sequence-specific DNA binding site [nucleotide binding]; other site 871963003315 Homeodomain-like domain; Region: HTH_23; cl17451 871963003316 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 871963003317 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 871963003318 Int/Topo IB signature motif; other site 871963003319 AAA domain; Region: AAA_25; pfam13481 871963003320 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 871963003321 Walker A motif; other site 871963003322 ATP binding site [chemical binding]; other site 871963003323 Walker B motif; other site 871963003324 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 871963003325 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 871963003326 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 871963003327 non-specific DNA binding site [nucleotide binding]; other site 871963003328 salt bridge; other site 871963003329 sequence-specific DNA binding site [nucleotide binding]; other site 871963003330 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 871963003331 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 871963003332 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 871963003333 ATP binding site [chemical binding]; other site 871963003334 putative Mg++ binding site [ion binding]; other site 871963003335 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 871963003336 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 871963003337 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 871963003338 AAA domain; Region: AAA_13; pfam13166 871963003339 HsdM N-terminal domain; Region: HsdM_N; pfam12161 871963003340 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 871963003341 Methyltransferase domain; Region: Methyltransf_26; pfam13659 871963003342 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 871963003343 HicB family; Region: HicB; pfam05534 871963003344 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963003345 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963003346 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963003347 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 871963003348 active site 871963003349 Uncharacterized conserved protein [Function unknown]; Region: COG3391 871963003350 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 871963003351 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 871963003352 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 871963003353 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 871963003354 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 871963003355 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 871963003356 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 871963003357 dimerization interface [polypeptide binding]; other site 871963003358 ATP binding site [chemical binding]; other site 871963003359 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 871963003360 dimerization interface [polypeptide binding]; other site 871963003361 ATP binding site [chemical binding]; other site 871963003362 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 871963003363 putative active site [active] 871963003364 catalytic triad [active] 871963003365 AIR carboxylase; Region: AIRC; pfam00731 871963003366 adenylosuccinate lyase; Provisional; Region: PRK07492 871963003367 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 871963003368 tetramer interface [polypeptide binding]; other site 871963003369 active site 871963003370 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 871963003371 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 871963003372 ATP binding site [chemical binding]; other site 871963003373 active site 871963003374 substrate binding site [chemical binding]; other site 871963003375 amidophosphoribosyltransferase; Provisional; Region: PRK05793 871963003376 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 871963003377 active site 871963003378 tetramer interface [polypeptide binding]; other site 871963003379 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871963003380 active site 871963003381 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 871963003382 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 871963003383 dimerization interface [polypeptide binding]; other site 871963003384 putative ATP binding site [chemical binding]; other site 871963003385 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 871963003386 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 871963003387 active site 871963003388 substrate binding site [chemical binding]; other site 871963003389 cosubstrate binding site; other site 871963003390 catalytic site [active] 871963003391 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 871963003392 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 871963003393 purine monophosphate binding site [chemical binding]; other site 871963003394 dimer interface [polypeptide binding]; other site 871963003395 putative catalytic residues [active] 871963003396 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 871963003397 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 871963003398 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 871963003399 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 871963003400 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 871963003401 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 871963003402 dinuclear metal binding motif [ion binding]; other site 871963003403 benzoate transport; Region: 2A0115; TIGR00895 871963003404 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 871963003405 putative substrate translocation pore; other site 871963003406 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 871963003407 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 871963003408 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 871963003409 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 871963003410 dimer interface [polypeptide binding]; other site 871963003411 conserved gate region; other site 871963003412 ABC-ATPase subunit interface; other site 871963003413 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 871963003414 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 871963003415 Walker A/P-loop; other site 871963003416 ATP binding site [chemical binding]; other site 871963003417 Q-loop/lid; other site 871963003418 ABC transporter signature motif; other site 871963003419 Walker B; other site 871963003420 D-loop; other site 871963003421 H-loop/switch region; other site 871963003422 NIL domain; Region: NIL; pfam09383 871963003423 Trp repressor protein; Region: Trp_repressor; cl17266 871963003424 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 871963003425 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 871963003426 dimer interface [polypeptide binding]; other site 871963003427 motif 1; other site 871963003428 active site 871963003429 motif 2; other site 871963003430 motif 3; other site 871963003431 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 871963003432 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 871963003433 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 871963003434 histidinol dehydrogenase; Region: hisD; TIGR00069 871963003435 NAD binding site [chemical binding]; other site 871963003436 dimerization interface [polypeptide binding]; other site 871963003437 product binding site; other site 871963003438 substrate binding site [chemical binding]; other site 871963003439 zinc binding site [ion binding]; other site 871963003440 catalytic residues [active] 871963003441 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 871963003442 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 871963003443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963003444 homodimer interface [polypeptide binding]; other site 871963003445 catalytic residue [active] 871963003446 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 871963003447 putative active site pocket [active] 871963003448 4-fold oligomerization interface [polypeptide binding]; other site 871963003449 metal binding residues [ion binding]; metal-binding site 871963003450 3-fold/trimer interface [polypeptide binding]; other site 871963003451 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 871963003452 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 871963003453 putative active site [active] 871963003454 oxyanion strand; other site 871963003455 catalytic triad [active] 871963003456 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 871963003457 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 871963003458 catalytic residues [active] 871963003459 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 871963003460 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 871963003461 substrate binding site [chemical binding]; other site 871963003462 glutamase interaction surface [polypeptide binding]; other site 871963003463 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 871963003464 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 871963003465 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 871963003466 metal binding site [ion binding]; metal-binding site 871963003467 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 871963003468 ApbE family; Region: ApbE; pfam02424 871963003469 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 871963003470 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 871963003471 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 871963003472 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]; Region: COG4939 871963003473 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 871963003474 ApbE family; Region: ApbE; pfam02424 871963003475 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 871963003476 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871963003477 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 871963003478 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 871963003479 active site residue [active] 871963003480 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 871963003481 dimerization interface [polypeptide binding]; other site 871963003482 putative DNA binding site [nucleotide binding]; other site 871963003483 putative Zn2+ binding site [ion binding]; other site 871963003484 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871963003485 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 871963003486 ligand binding site [chemical binding]; other site 871963003487 flexible hinge region; other site 871963003488 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 871963003489 putative switch regulator; other site 871963003490 non-specific DNA interactions [nucleotide binding]; other site 871963003491 DNA binding site [nucleotide binding] 871963003492 sequence specific DNA binding site [nucleotide binding]; other site 871963003493 putative cAMP binding site [chemical binding]; other site 871963003494 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 871963003495 active site residue [active] 871963003496 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 871963003497 active site residue [active] 871963003498 thiosulfate reductase PhsA; Provisional; Region: PRK15488 871963003499 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 871963003500 putative [Fe4-S4] binding site [ion binding]; other site 871963003501 putative molybdopterin cofactor binding site [chemical binding]; other site 871963003502 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 871963003503 putative molybdopterin cofactor binding site; other site 871963003504 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 871963003505 4Fe-4S binding domain; Region: Fer4; cl02805 871963003506 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 871963003507 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 871963003508 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 871963003509 active site residue [active] 871963003510 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 871963003511 active site residue [active] 871963003512 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 871963003513 Part of AAA domain; Region: AAA_19; pfam13245 871963003514 Family description; Region: UvrD_C_2; pfam13538 871963003515 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 871963003516 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 871963003517 DRTGG domain; Region: DRTGG; pfam07085 871963003518 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 871963003519 DHH family; Region: DHH; pfam01368 871963003520 DHHA2 domain; Region: DHHA2; pfam02833 871963003521 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 871963003522 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 871963003523 nucleotide binding pocket [chemical binding]; other site 871963003524 K-X-D-G motif; other site 871963003525 catalytic site [active] 871963003526 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 871963003527 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 871963003528 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 871963003529 Dimer interface [polypeptide binding]; other site 871963003530 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 871963003531 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 871963003532 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 871963003533 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 871963003534 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 871963003535 GatB domain; Region: GatB_Yqey; smart00845 871963003536 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 871963003537 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 871963003538 active site 871963003539 catalytic residues [active] 871963003540 metal binding site [ion binding]; metal-binding site 871963003541 isocitrate dehydrogenase; Validated; Region: PRK08299 871963003542 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 871963003543 ATP binding site [chemical binding]; other site 871963003544 active site 871963003545 substrate binding site [chemical binding]; other site 871963003546 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 871963003547 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 871963003548 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 871963003549 NAD(P) binding pocket [chemical binding]; other site 871963003550 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 871963003551 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 871963003552 dimer interface [polypeptide binding]; other site 871963003553 active site 871963003554 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 871963003555 catalytic residues [active] 871963003556 substrate binding site [chemical binding]; other site 871963003557 CAAX protease self-immunity; Region: Abi; pfam02517 871963003558 TRAM domain; Region: TRAM; pfam01938 871963003559 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 871963003560 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 871963003561 S-adenosylmethionine binding site [chemical binding]; other site 871963003562 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 871963003563 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 871963003564 stage V sporulation protein T; Region: spore_V_T; TIGR02851 871963003565 S-layer homology domain; Region: SLH; pfam00395 871963003566 YodL-like; Region: YodL; pfam14191 871963003567 SpoVG; Region: SpoVG; pfam04026 871963003568 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 871963003569 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 871963003570 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 871963003571 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 871963003572 Recombinase; Region: Recombinase; pfam07508 871963003573 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 871963003574 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 871963003575 catalytic residues [active] 871963003576 catalytic nucleophile [active] 871963003577 Recombinase; Region: Recombinase; pfam07508 871963003578 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 871963003579 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 871963003580 non-specific DNA binding site [nucleotide binding]; other site 871963003581 salt bridge; other site 871963003582 sequence-specific DNA binding site [nucleotide binding]; other site 871963003583 flavodoxin; Provisional; Region: PRK06242 871963003584 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 871963003585 Predicted transcriptional regulators [Transcription]; Region: COG1733 871963003586 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 871963003587 Transposase, Mutator family; Region: Transposase_mut; pfam00872 871963003588 Helix-turn-helix domain; Region: HTH_17; pfam12728 871963003589 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871963003590 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871963003591 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871963003592 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963003593 Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]; Region: LytB; COG2247 871963003594 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963003595 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963003596 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 871963003597 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 871963003598 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 871963003599 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 871963003600 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 871963003601 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 871963003602 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 871963003603 Walker A motif; other site 871963003604 ATP binding site [chemical binding]; other site 871963003605 Walker B motif; other site 871963003606 arginine finger; other site 871963003607 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 871963003608 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 871963003609 Antirestriction protein (ArdA); Region: ArdA; cl01953 871963003610 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 871963003611 cell division protein MraZ; Reviewed; Region: PRK00326 871963003612 S-layer homology domain; Region: SLH; pfam00395 871963003613 YodL-like; Region: YodL; pfam14191 871963003614 SpoVG; Region: SpoVG; pfam04026 871963003615 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 871963003616 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 871963003617 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 871963003618 AAA domain; Region: AAA_31; pfam13614 871963003619 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 871963003620 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 871963003621 Walker A motif; other site 871963003622 ATP binding site [chemical binding]; other site 871963003623 Walker B motif; other site 871963003624 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 871963003625 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 871963003626 Protein of unknown function (DUF3852); Region: DUF3852; pfam12963 871963003627 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963003628 Zn2+ binding site [ion binding]; other site 871963003629 Mg2+ binding site [ion binding]; other site 871963003630 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 871963003631 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 871963003632 cofactor binding site; other site 871963003633 DNA binding site [nucleotide binding] 871963003634 substrate interaction site [chemical binding]; other site 871963003635 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 871963003636 AAA-like domain; Region: AAA_10; pfam12846 871963003637 Domain of unknown function DUF87; Region: DUF87; pfam01935 871963003638 Protein of unknown function (DUF3849); Region: DUF3849; pfam12960 871963003639 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 871963003640 Mg binding site [ion binding]; other site 871963003641 nucleotide binding site [chemical binding]; other site 871963003642 putative protofilament interface [polypeptide binding]; other site 871963003643 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 871963003644 Sel1-like repeats; Region: SEL1; smart00671 871963003645 Sel1-like repeats; Region: SEL1; smart00671 871963003646 Sel1-like repeats; Region: SEL1; smart00671 871963003647 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 871963003648 Sel1-like repeats; Region: SEL1; smart00671 871963003649 Sel1-like repeats; Region: SEL1; smart00671 871963003650 Sel1-like repeats; Region: SEL1; smart00671 871963003651 Sel1-like repeats; Region: SEL1; smart00671 871963003652 Sel1-like repeats; Region: SEL1; smart00671 871963003653 Sel1-like repeats; Region: SEL1; smart00671 871963003654 CHC2 zinc finger; Region: zf-CHC2; cl17510 871963003655 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 871963003656 Toprim-like; Region: Toprim_2; pfam13155 871963003657 active site 871963003658 metal binding site [ion binding]; metal-binding site 871963003659 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 871963003660 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 871963003661 Walker A motif; other site 871963003662 ATP binding site [chemical binding]; other site 871963003663 Walker B motif; other site 871963003664 Helix-turn-helix domain; Region: HTH_36; pfam13730 871963003665 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 871963003666 metal-binding site [ion binding] 871963003667 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 871963003668 Heavy-metal-associated domain; Region: HMA; pfam00403 871963003669 metal-binding site [ion binding] 871963003670 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 871963003671 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 871963003672 motif I; other site 871963003673 motif II; other site 871963003674 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 871963003675 dimerization interface [polypeptide binding]; other site 871963003676 putative DNA binding site [nucleotide binding]; other site 871963003677 putative Zn2+ binding site [ion binding]; other site 871963003678 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 871963003679 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 871963003680 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 871963003681 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963003682 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963003683 active site 871963003684 phosphorylation site [posttranslational modification] 871963003685 intermolecular recognition site; other site 871963003686 dimerization interface [polypeptide binding]; other site 871963003687 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 871963003688 DNA binding site [nucleotide binding] 871963003689 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 871963003690 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 871963003691 dimerization interface [polypeptide binding]; other site 871963003692 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963003693 dimer interface [polypeptide binding]; other site 871963003694 phosphorylation site [posttranslational modification] 871963003695 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963003696 ATP binding site [chemical binding]; other site 871963003697 Mg2+ binding site [ion binding]; other site 871963003698 G-X-G motif; other site 871963003699 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 871963003700 CHASE3 domain; Region: CHASE3; cl05000 871963003701 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 871963003702 dimerization interface [polypeptide binding]; other site 871963003703 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963003704 dimer interface [polypeptide binding]; other site 871963003705 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 871963003706 putative CheW interface [polypeptide binding]; other site 871963003707 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 871963003708 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 871963003709 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963003710 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 871963003711 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 871963003712 non-specific DNA binding site [nucleotide binding]; other site 871963003713 salt bridge; other site 871963003714 sequence-specific DNA binding site [nucleotide binding]; other site 871963003715 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963003716 Predicted membrane protein [Function unknown]; Region: COG3462 871963003717 Short C-terminal domain; Region: SHOCT; pfam09851 871963003718 Uncharacterized conserved protein [Function unknown]; Region: COG2128 871963003719 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 871963003720 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 871963003721 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 871963003722 G1 box; other site 871963003723 GTP/Mg2+ binding site [chemical binding]; other site 871963003724 Switch I region; other site 871963003725 G2 box; other site 871963003726 G3 box; other site 871963003727 Switch II region; other site 871963003728 G4 box; other site 871963003729 G5 box; other site 871963003730 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 871963003731 Nucleoside recognition; Region: Gate; pfam07670 871963003732 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 871963003733 Nucleoside recognition; Region: Gate; pfam07670 871963003734 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 871963003735 FeoA domain; Region: FeoA; pfam04023 871963003736 Domain of unknown function (DUF955); Region: DUF955; pfam06114 871963003737 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 871963003738 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 871963003739 non-specific DNA binding site [nucleotide binding]; other site 871963003740 salt bridge; other site 871963003741 sequence-specific DNA binding site [nucleotide binding]; other site 871963003742 GEMM cis-regulatory element 871963003743 exosome complex RNA-binding protein Csl4; Provisional; Region: PRK09521 871963003744 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 871963003745 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 871963003746 DNA binding residues [nucleotide binding] 871963003747 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 871963003748 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 871963003749 catalytic residues [active] 871963003750 catalytic nucleophile [active] 871963003751 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 871963003752 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 871963003753 catalytic residues [active] 871963003754 catalytic nucleophile [active] 871963003755 Recombinase; Region: Recombinase; pfam07508 871963003756 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 871963003757 Recombinase; Region: Recombinase; pfam07508 871963003758 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 871963003759 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 871963003760 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 871963003761 catalytic residues [active] 871963003762 catalytic nucleophile [active] 871963003763 Recombinase; Region: Recombinase; pfam07508 871963003764 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 871963003765 SEC-C motif; Region: SEC-C; pfam02810 871963003766 Divergent AAA domain; Region: AAA_4; pfam04326 871963003767 Dock Homology Region 2, a GEF domain, of Dedicator of Cytokinesis proteins; Region: DHR2_DOCK; cl06123 871963003768 dimer interface [polypeptide binding]; other site 871963003769 KilA-N domain; Region: KilA-N; pfam04383 871963003770 Transposase, Mutator family; Region: Transposase_mut; pfam00872 871963003771 MULE transposase domain; Region: MULE; pfam10551 871963003772 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 871963003773 reductive dehalogenase; Region: RDH; TIGR02486 871963003774 FMN-binding domain; Region: FMN_bind; pfam04205 871963003775 4Fe-4S binding domain; Region: Fer4_5; pfam12801 871963003776 4Fe-4S binding domain; Region: Fer4_5; pfam12801 871963003777 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 871963003778 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963003779 dimer interface [polypeptide binding]; other site 871963003780 putative CheW interface [polypeptide binding]; other site 871963003781 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 871963003782 Transposase [DNA replication, recombination, and repair]; Region: COG5421 871963003783 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 871963003784 Transposase, Mutator family; Region: Transposase_mut; pfam00872 871963003785 MULE transposase domain; Region: MULE; pfam10551 871963003786 SAP domain; Region: SAP; pfam02037 871963003787 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 871963003788 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 871963003789 HipA-like C-terminal domain; Region: HipA_C; pfam07804 871963003790 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 871963003791 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 871963003792 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 871963003793 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 871963003794 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 871963003795 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 871963003796 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_A; cd01299 871963003797 active site 871963003798 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 871963003799 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 871963003800 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 871963003801 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 871963003802 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 871963003803 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 871963003804 non-specific DNA binding site [nucleotide binding]; other site 871963003805 salt bridge; other site 871963003806 sequence-specific DNA binding site [nucleotide binding]; other site 871963003807 Cupin domain; Region: Cupin_2; pfam07883 871963003808 Uncharacterized membrane protein [Function unknown]; Region: COG3949 871963003809 Uncharacterized conserved protein [Function unknown]; Region: COG4748 871963003810 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 871963003811 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 871963003812 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 871963003813 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871963003814 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 871963003815 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963003816 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963003817 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963003818 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 871963003819 S-adenosylmethionine binding site [chemical binding]; other site 871963003820 NNMT/PNMT/TEMT family; Region: NNMT_PNMT_TEMT; pfam01234 871963003821 Rrf2 family protein; Region: rrf2_super; TIGR00738 871963003822 Transcriptional regulator; Region: Rrf2; pfam02082 871963003823 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871963003824 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 871963003825 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 871963003826 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963003827 Walker A/P-loop; other site 871963003828 ATP binding site [chemical binding]; other site 871963003829 Q-loop/lid; other site 871963003830 ABC transporter signature motif; other site 871963003831 Walker B; other site 871963003832 D-loop; other site 871963003833 H-loop/switch region; other site 871963003834 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 871963003835 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 871963003836 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 871963003837 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 871963003838 Protein of unknown function, DUF488; Region: DUF488; cl01246 871963003839 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 871963003840 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 871963003841 RNA binding surface [nucleotide binding]; other site 871963003842 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 871963003843 active site 871963003844 Uncharacterized conserved protein [Function unknown]; Region: COG5646 871963003845 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 871963003846 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 871963003847 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 871963003848 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 871963003849 ATP binding site [chemical binding]; other site 871963003850 putative Mg++ binding site [ion binding]; other site 871963003851 Virulence protein [General function prediction only]; Region: COG3943 871963003852 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 871963003853 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 871963003854 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 871963003855 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 871963003856 HsdM N-terminal domain; Region: HsdM_N; pfam12161 871963003857 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 871963003858 Methyltransferase domain; Region: Methyltransf_26; pfam13659 871963003859 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 871963003860 Penicillinase repressor; Region: Pencillinase_R; pfam03965 871963003861 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 871963003862 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 871963003863 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 871963003864 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 871963003865 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963003866 Zn2+ binding site [ion binding]; other site 871963003867 Mg2+ binding site [ion binding]; other site 871963003868 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963003869 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963003870 active site 871963003871 phosphorylation site [posttranslational modification] 871963003872 intermolecular recognition site; other site 871963003873 dimerization interface [polypeptide binding]; other site 871963003874 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 871963003875 DNA binding site [nucleotide binding] 871963003876 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 871963003877 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963003878 dimer interface [polypeptide binding]; other site 871963003879 phosphorylation site [posttranslational modification] 871963003880 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963003881 ATP binding site [chemical binding]; other site 871963003882 Mg2+ binding site [ion binding]; other site 871963003883 G-X-G motif; other site 871963003884 VanZ like family; Region: VanZ; pfam04892 871963003885 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 871963003886 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 871963003887 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 871963003888 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 871963003889 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 871963003890 putative active site [active] 871963003891 GTPase RsgA; Reviewed; Region: PRK01889 871963003892 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 871963003893 RNA binding site [nucleotide binding]; other site 871963003894 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 871963003895 GTPase/Zn-binding domain interface [polypeptide binding]; other site 871963003896 GTP/Mg2+ binding site [chemical binding]; other site 871963003897 G4 box; other site 871963003898 G5 box; other site 871963003899 G1 box; other site 871963003900 Switch I region; other site 871963003901 G2 box; other site 871963003902 G3 box; other site 871963003903 Switch II region; other site 871963003904 DNA-binding ferritin-like protein (Dps family) [General function prediction only]; Region: COG4817 871963003905 Predicted transcriptional regulators [Transcription]; Region: COG1695 871963003906 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 871963003907 VanW like protein; Region: VanW; pfam04294 871963003908 D-alanine--D-lactate ligase; Provisional; Region: vanB; PRK14568 871963003909 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 871963003910 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 871963003911 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 871963003912 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871963003913 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 871963003914 putative substrate translocation pore; other site 871963003915 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 871963003916 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 871963003917 non-specific DNA binding site [nucleotide binding]; other site 871963003918 salt bridge; other site 871963003919 sequence-specific DNA binding site [nucleotide binding]; other site 871963003920 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 871963003921 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963003922 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963003923 metal binding site [ion binding]; metal-binding site 871963003924 active site 871963003925 I-site; other site 871963003926 Protein of unknown function (DUF1271); Region: DUF1271; pfam06902 871963003927 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 871963003928 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 871963003929 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 871963003930 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 871963003931 Walker A/P-loop; other site 871963003932 ATP binding site [chemical binding]; other site 871963003933 Q-loop/lid; other site 871963003934 ABC transporter signature motif; other site 871963003935 Walker B; other site 871963003936 D-loop; other site 871963003937 H-loop/switch region; other site 871963003938 FOG: CBS domain [General function prediction only]; Region: COG0517 871963003939 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 871963003940 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 871963003941 dimer interface [polypeptide binding]; other site 871963003942 conserved gate region; other site 871963003943 putative PBP binding loops; other site 871963003944 ABC-ATPase subunit interface; other site 871963003945 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 871963003946 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 871963003947 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 871963003948 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 871963003949 Probable Catalytic site; other site 871963003950 metal-binding site 871963003951 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 871963003952 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 871963003953 NADP binding site [chemical binding]; other site 871963003954 active site 871963003955 putative substrate binding site [chemical binding]; other site 871963003956 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 871963003957 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 871963003958 active site 871963003959 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 871963003960 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 871963003961 NAD binding site [chemical binding]; other site 871963003962 substrate binding site [chemical binding]; other site 871963003963 homodimer interface [polypeptide binding]; other site 871963003964 active site 871963003965 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 871963003966 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 871963003967 Ligand binding site; other site 871963003968 Putative Catalytic site; other site 871963003969 DXD motif; other site 871963003970 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 871963003971 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 871963003972 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 871963003973 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 871963003974 Walker A/P-loop; other site 871963003975 ATP binding site [chemical binding]; other site 871963003976 Q-loop/lid; other site 871963003977 ABC transporter signature motif; other site 871963003978 Walker B; other site 871963003979 D-loop; other site 871963003980 H-loop/switch region; other site 871963003981 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 871963003982 putative carbohydrate binding site [chemical binding]; other site 871963003983 Methyltransferase domain; Region: Methyltransf_23; pfam13489 871963003984 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 871963003985 S-adenosylmethionine binding site [chemical binding]; other site 871963003986 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 871963003987 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 871963003988 Probable Catalytic site; other site 871963003989 metal-binding site 871963003990 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 871963003991 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 871963003992 Probable Catalytic site; other site 871963003993 metal-binding site 871963003994 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 871963003995 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 871963003996 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871963003997 ligand binding site [chemical binding]; other site 871963003998 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 871963003999 non-specific DNA interactions [nucleotide binding]; other site 871963004000 DNA binding site [nucleotide binding] 871963004001 sequence specific DNA binding site [nucleotide binding]; other site 871963004002 putative cAMP binding site [chemical binding]; other site 871963004003 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 871963004004 L-aspartate oxidase; Provisional; Region: PRK06175 871963004005 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 871963004006 Ferredoxin [Energy production and conversion]; Region: COG1146 871963004007 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 871963004008 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 871963004009 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963004010 putative oxidoreductase; Provisional; Region: PRK08275 871963004011 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 871963004012 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 871963004013 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 871963004014 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 871963004015 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 871963004016 putative substrate translocation pore; other site 871963004017 Ferredoxin [Energy production and conversion]; Region: COG1146 871963004018 putative oxidoreductase; Provisional; Region: PRK08275 871963004019 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 871963004020 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871963004021 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 871963004022 ligand binding site [chemical binding]; other site 871963004023 flexible hinge region; other site 871963004024 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 871963004025 putative switch regulator; other site 871963004026 non-specific DNA interactions [nucleotide binding]; other site 871963004027 DNA binding site [nucleotide binding] 871963004028 sequence specific DNA binding site [nucleotide binding]; other site 871963004029 putative cAMP binding site [chemical binding]; other site 871963004030 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 871963004031 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963004032 Walker A/P-loop; other site 871963004033 ATP binding site [chemical binding]; other site 871963004034 Q-loop/lid; other site 871963004035 ABC transporter signature motif; other site 871963004036 Walker B; other site 871963004037 D-loop; other site 871963004038 H-loop/switch region; other site 871963004039 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 871963004040 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 871963004041 TM-ABC transporter signature motif; other site 871963004042 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 871963004043 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 871963004044 zinc binding site [ion binding]; other site 871963004045 putative ligand binding site [chemical binding]; other site 871963004046 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 871963004047 GAF domain; Region: GAF_3; pfam13492 871963004048 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963004049 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963004050 metal binding site [ion binding]; metal-binding site 871963004051 active site 871963004052 I-site; other site 871963004053 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 871963004054 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 871963004055 Uncharacterized conserved protein [Function unknown]; Region: COG3422 871963004056 Hemerythrin-like domain; Region: Hr-like; cd12108 871963004057 Fe binding site [ion binding]; other site 871963004058 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 871963004059 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871963004060 NAD(P) binding site [chemical binding]; other site 871963004061 active site 871963004062 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 871963004063 MarR family; Region: MarR_2; pfam12802 871963004064 MarR family; Region: MarR_2; cl17246 871963004065 Pirin-related protein [General function prediction only]; Region: COG1741 871963004066 Pirin; Region: Pirin; pfam02678 871963004067 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 871963004068 4Fe-4S binding domain; Region: Fer4; cl02805 871963004069 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 871963004070 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 871963004071 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 871963004072 Cytochrome c552; Region: Cytochrom_C552; pfam02335 871963004073 Rubredoxin [Energy production and conversion]; Region: COG1773 871963004074 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; cd00350 871963004075 iron binding site [ion binding]; other site 871963004076 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 871963004077 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 871963004078 Predicted flavoprotein [General function prediction only]; Region: COG0431 871963004079 Propionate catabolism activator; Region: PrpR_N; pfam06506 871963004080 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963004081 putative CheW interface [polypeptide binding]; other site 871963004082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 871963004083 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 871963004084 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 871963004085 metal ion-dependent adhesion site (MIDAS); other site 871963004086 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 871963004087 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 871963004088 Walker A motif; other site 871963004089 ATP binding site [chemical binding]; other site 871963004090 Walker B motif; other site 871963004091 Methyltransferase domain; Region: Methyltransf_31; pfam13847 871963004092 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 871963004093 S-adenosylmethionine binding site [chemical binding]; other site 871963004094 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 871963004095 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 871963004096 G1 box; other site 871963004097 putative GEF interaction site [polypeptide binding]; other site 871963004098 GTP/Mg2+ binding site [chemical binding]; other site 871963004099 Switch I region; other site 871963004100 G2 box; other site 871963004101 G3 box; other site 871963004102 Switch II region; other site 871963004103 G4 box; other site 871963004104 G5 box; other site 871963004105 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 871963004106 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 871963004107 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 871963004108 YacP-like NYN domain; Region: NYN_YacP; pfam05991 871963004109 Rubrerythrin [Energy production and conversion]; Region: COG1592 871963004110 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 871963004111 binuclear metal center [ion binding]; other site 871963004112 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 871963004113 iron binding site [ion binding]; other site 871963004114 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 871963004115 homodimer interaction site [polypeptide binding]; other site 871963004116 cofactor binding site; other site 871963004117 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 871963004118 MarR family; Region: MarR; pfam01047 871963004119 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 871963004120 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 871963004121 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963004122 Walker A/P-loop; other site 871963004123 ATP binding site [chemical binding]; other site 871963004124 Q-loop/lid; other site 871963004125 ABC transporter signature motif; other site 871963004126 Walker B; other site 871963004127 D-loop; other site 871963004128 H-loop/switch region; other site 871963004129 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 871963004130 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 871963004131 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 871963004132 Walker A/P-loop; other site 871963004133 ATP binding site [chemical binding]; other site 871963004134 Q-loop/lid; other site 871963004135 ABC transporter signature motif; other site 871963004136 Walker B; other site 871963004137 D-loop; other site 871963004138 H-loop/switch region; other site 871963004139 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 871963004140 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 871963004141 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 871963004142 Binuclear center (active site) [active] 871963004143 Putative proton exit pathway; other site 871963004144 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 871963004145 Putative water exit pathway; other site 871963004146 Putative proton exit pathway; other site 871963004147 Cytochrome c; Region: Cytochrom_C; pfam00034 871963004148 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 871963004149 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 871963004150 TM-ABC transporter signature motif; other site 871963004151 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 871963004152 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 871963004153 TM-ABC transporter signature motif; other site 871963004154 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 871963004155 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 871963004156 Walker A/P-loop; other site 871963004157 ATP binding site [chemical binding]; other site 871963004158 Q-loop/lid; other site 871963004159 ABC transporter signature motif; other site 871963004160 Walker B; other site 871963004161 D-loop; other site 871963004162 H-loop/switch region; other site 871963004163 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 871963004164 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 871963004165 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 871963004166 ligand binding site [chemical binding]; other site 871963004167 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 871963004168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871963004169 NAD(P) binding site [chemical binding]; other site 871963004170 active site 871963004171 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 871963004172 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 871963004173 active site 871963004174 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 871963004175 active site 871963004176 Uncharacterized conserved protein [Function unknown]; Region: COG0398 871963004177 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 871963004178 Uncharacterized conserved protein [Function unknown]; Region: COG1284 871963004179 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 871963004180 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 871963004181 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 871963004182 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963004183 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963004184 metal binding site [ion binding]; metal-binding site 871963004185 active site 871963004186 I-site; other site 871963004187 PAS domain; Region: PAS_10; pfam13596 871963004188 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 871963004189 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 871963004190 catalytic residues [active] 871963004191 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 871963004192 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 871963004193 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 871963004194 dimerization interface [polypeptide binding]; other site 871963004195 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963004196 dimer interface [polypeptide binding]; other site 871963004197 phosphorylation site [posttranslational modification] 871963004198 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963004199 ATP binding site [chemical binding]; other site 871963004200 Mg2+ binding site [ion binding]; other site 871963004201 G-X-G motif; other site 871963004202 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963004203 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963004204 active site 871963004205 phosphorylation site [posttranslational modification] 871963004206 intermolecular recognition site; other site 871963004207 dimerization interface [polypeptide binding]; other site 871963004208 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 871963004209 DNA binding site [nucleotide binding] 871963004210 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 871963004211 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 871963004212 ligand binding site [chemical binding]; other site 871963004213 active site 871963004214 UGI interface [polypeptide binding]; other site 871963004215 catalytic site [active] 871963004216 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963004217 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963004218 metal binding site [ion binding]; metal-binding site 871963004219 active site 871963004220 I-site; other site 871963004221 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 871963004222 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 871963004223 active site 871963004224 8-oxo-dGMP binding site [chemical binding]; other site 871963004225 nudix motif; other site 871963004226 metal binding site [ion binding]; metal-binding site 871963004227 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 871963004228 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 871963004229 substrate binding pocket [chemical binding]; other site 871963004230 membrane-bound complex binding site; other site 871963004231 hinge residues; other site 871963004232 Transposase; Region: DEDD_Tnp_IS110; pfam01548 871963004233 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 871963004234 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 871963004235 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 871963004236 dimer interface [polypeptide binding]; other site 871963004237 conserved gate region; other site 871963004238 putative PBP binding loops; other site 871963004239 ABC-ATPase subunit interface; other site 871963004240 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 871963004241 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 871963004242 Walker A/P-loop; other site 871963004243 ATP binding site [chemical binding]; other site 871963004244 Q-loop/lid; other site 871963004245 ABC transporter signature motif; other site 871963004246 Walker B; other site 871963004247 D-loop; other site 871963004248 H-loop/switch region; other site 871963004249 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 871963004250 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 871963004251 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963004252 Walker A/P-loop; other site 871963004253 ATP binding site [chemical binding]; other site 871963004254 Q-loop/lid; other site 871963004255 ABC transporter signature motif; other site 871963004256 Walker B; other site 871963004257 D-loop; other site 871963004258 H-loop/switch region; other site 871963004259 Predicted membrane protein [Function unknown]; Region: COG1971 871963004260 Domain of unknown function DUF; Region: DUF204; pfam02659 871963004261 Domain of unknown function DUF; Region: DUF204; pfam02659 871963004262 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 871963004263 Uncharacterized conserved protein [Function unknown]; Region: COG1633 871963004264 diiron binding motif [ion binding]; other site 871963004265 aspartate aminotransferase; Provisional; Region: PRK06836 871963004266 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 871963004267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963004268 homodimer interface [polypeptide binding]; other site 871963004269 catalytic residue [active] 871963004270 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 871963004271 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 871963004272 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 871963004273 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 871963004274 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 871963004275 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 871963004276 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 871963004277 Transposase; Region: HTH_Tnp_1; cl17663 871963004278 Domain of unknown function (DUF1900); Region: DUF1900; pfam08954 871963004279 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963004280 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963004281 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963004282 EDD domain protein, DegV family; Region: DegV; TIGR00762 871963004283 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 871963004284 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 871963004285 PAS domain S-box; Region: sensory_box; TIGR00229 871963004286 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 871963004287 putative active site [active] 871963004288 heme pocket [chemical binding]; other site 871963004289 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963004290 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963004291 metal binding site [ion binding]; metal-binding site 871963004292 active site 871963004293 I-site; other site 871963004294 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 871963004295 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 871963004296 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 871963004297 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 871963004298 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 871963004299 Soluble P-type ATPase [General function prediction only]; Region: COG4087 871963004300 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 871963004301 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 871963004302 Cation efflux family; Region: Cation_efflux; pfam01545 871963004303 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 871963004304 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 871963004305 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871963004306 Coenzyme A binding pocket [chemical binding]; other site 871963004307 EDD domain protein, DegV family; Region: DegV; TIGR00762 871963004308 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 871963004309 DNA methylase; Region: N6_N4_Mtase; cl17433 871963004310 Methyltransferase domain; Region: Methyltransf_31; pfam13847 871963004311 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 871963004312 S-adenosylmethionine binding site [chemical binding]; other site 871963004313 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 871963004314 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 871963004315 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 871963004316 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 871963004317 active site 871963004318 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 871963004319 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 871963004320 putative lipid kinase; Reviewed; Region: PRK13059 871963004321 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 871963004322 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 871963004323 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 871963004324 active site 871963004325 NTP binding site [chemical binding]; other site 871963004326 metal binding triad [ion binding]; metal-binding site 871963004327 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 871963004328 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 871963004329 Rubredoxin; Region: Rubredoxin; pfam00301 871963004330 iron binding site [ion binding]; other site 871963004331 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 871963004332 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 871963004333 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 871963004334 hypothetical protein; Validated; Region: PRK07682 871963004335 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 871963004336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963004337 homodimer interface [polypeptide binding]; other site 871963004338 catalytic residue [active] 871963004339 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 871963004340 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 871963004341 AsnC family; Region: AsnC_trans_reg; pfam01037 871963004342 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 871963004343 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 871963004344 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 871963004345 Mg++ binding site [ion binding]; other site 871963004346 putative catalytic motif [active] 871963004347 substrate binding site [chemical binding]; other site 871963004348 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 871963004349 metal-dependent hydrolase; Provisional; Region: PRK00685 871963004350 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 871963004351 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 871963004352 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963004353 DNA-binding site [nucleotide binding]; DNA binding site 871963004354 DRTGG domain; Region: DRTGG; pfam07085 871963004355 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 871963004356 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 871963004357 active site 2 [active] 871963004358 active site 1 [active] 871963004359 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 871963004360 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 871963004361 active site 871963004362 PHP Thumb interface [polypeptide binding]; other site 871963004363 metal binding site [ion binding]; metal-binding site 871963004364 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 871963004365 generic binding surface II; other site 871963004366 generic binding surface I; other site 871963004367 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 871963004368 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 871963004369 active site 871963004370 (T/H)XGH motif; other site 871963004371 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 871963004372 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 871963004373 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 871963004374 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 871963004375 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 871963004376 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 871963004377 EamA-like transporter family; Region: EamA; pfam00892 871963004378 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871963004379 EamA-like transporter family; Region: EamA; pfam00892 871963004380 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 871963004381 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 871963004382 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 871963004383 DNA polymerase I; Provisional; Region: PRK05755 871963004384 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 871963004385 active site 871963004386 metal binding site 1 [ion binding]; metal-binding site 871963004387 putative 5' ssDNA interaction site; other site 871963004388 metal binding site 3; metal-binding site 871963004389 metal binding site 2 [ion binding]; metal-binding site 871963004390 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 871963004391 putative DNA binding site [nucleotide binding]; other site 871963004392 putative metal binding site [ion binding]; other site 871963004393 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 871963004394 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 871963004395 active site 871963004396 DNA binding site [nucleotide binding] 871963004397 catalytic site [active] 871963004398 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 871963004399 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 871963004400 DNA binding site [nucleotide binding] 871963004401 catalytic residue [active] 871963004402 H2TH interface [polypeptide binding]; other site 871963004403 putative catalytic residues [active] 871963004404 turnover-facilitating residue; other site 871963004405 intercalation triad [nucleotide binding]; other site 871963004406 8OG recognition residue [nucleotide binding]; other site 871963004407 putative reading head residues; other site 871963004408 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 871963004409 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 871963004410 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 871963004411 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963004412 Walker A/P-loop; other site 871963004413 ATP binding site [chemical binding]; other site 871963004414 Q-loop/lid; other site 871963004415 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 871963004416 ABC transporter signature motif; other site 871963004417 Walker B; other site 871963004418 D-loop; other site 871963004419 ABC transporter; Region: ABC_tran_2; pfam12848 871963004420 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 871963004421 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 871963004422 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 871963004423 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 871963004424 CoA-binding site [chemical binding]; other site 871963004425 ATP-binding [chemical binding]; other site 871963004426 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 871963004427 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 871963004428 N-acetyl-D-glucosamine binding site [chemical binding]; other site 871963004429 catalytic residue [active] 871963004430 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 871963004431 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 871963004432 homoserine kinase; Provisional; Region: PRK01212 871963004433 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 871963004434 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 871963004435 homoserine dehydrogenase; Provisional; Region: PRK06349 871963004436 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 871963004437 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 871963004438 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 871963004439 ykkC-yxkD leader 871963004440 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 871963004441 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 871963004442 homodimer interface [polypeptide binding]; other site 871963004443 substrate-cofactor binding pocket; other site 871963004444 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963004445 catalytic residue [active] 871963004446 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 871963004447 6-phosphogluconate dehydratase; Region: edd; TIGR01196 871963004448 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 871963004449 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 871963004450 PYR/PP interface [polypeptide binding]; other site 871963004451 dimer interface [polypeptide binding]; other site 871963004452 TPP binding site [chemical binding]; other site 871963004453 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 871963004454 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 871963004455 TPP-binding site [chemical binding]; other site 871963004456 dimer interface [polypeptide binding]; other site 871963004457 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 871963004458 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 871963004459 putative valine binding site [chemical binding]; other site 871963004460 dimer interface [polypeptide binding]; other site 871963004461 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 871963004462 ketol-acid reductoisomerase; Provisional; Region: PRK05479 871963004463 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 871963004464 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 871963004465 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 871963004466 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 871963004467 substrate binding site [chemical binding]; other site 871963004468 ligand binding site [chemical binding]; other site 871963004469 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 871963004470 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 871963004471 substrate binding site [chemical binding]; other site 871963004472 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 871963004473 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 871963004474 tartrate dehydrogenase; Region: TTC; TIGR02089 871963004475 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 871963004476 6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase, and other MDR family members; Region: hydroxyacyl_CoA_DH; cd08254 871963004477 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 871963004478 putative NAD(P) binding site [chemical binding]; other site 871963004479 catalytic Zn binding site [ion binding]; other site 871963004480 structural Zn binding site [ion binding]; other site 871963004481 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 871963004482 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 871963004483 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 871963004484 gamma-glutamyl kinase; Provisional; Region: PRK05429 871963004485 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 871963004486 nucleotide binding site [chemical binding]; other site 871963004487 homotetrameric interface [polypeptide binding]; other site 871963004488 putative phosphate binding site [ion binding]; other site 871963004489 putative allosteric binding site; other site 871963004490 PUA domain; Region: PUA; pfam01472 871963004491 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 871963004492 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 871963004493 putative catalytic cysteine [active] 871963004494 Helix-turn-helix domain; Region: HTH_28; pfam13518 871963004495 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 871963004496 Helix-turn-helix domain; Region: HTH_28; pfam13518 871963004497 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 871963004498 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 871963004499 Bacterial Ig-like domain; Region: Big_5; pfam13205 871963004500 Bacterial Ig-like domain; Region: Big_5; pfam13205 871963004501 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 871963004502 Alpha-2-macroglobulin family; Region: A2M; pfam00207 871963004503 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 871963004504 putative ligand binding pocket/active site [active] 871963004505 putative metal binding site [ion binding]; other site 871963004506 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 871963004507 H+ Antiporter protein; Region: 2A0121; TIGR00900 871963004508 putative substrate translocation pore; other site 871963004509 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 871963004510 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 871963004511 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 871963004512 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 871963004513 Walker A/P-loop; other site 871963004514 ATP binding site [chemical binding]; other site 871963004515 Q-loop/lid; other site 871963004516 ABC transporter signature motif; other site 871963004517 Walker B; other site 871963004518 D-loop; other site 871963004519 H-loop/switch region; other site 871963004520 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 871963004521 phosphofructokinase; Region: PFK_mixed; TIGR02483 871963004522 active site 871963004523 ADP/pyrophosphate binding site [chemical binding]; other site 871963004524 dimerization interface [polypeptide binding]; other site 871963004525 allosteric effector site; other site 871963004526 fructose-1,6-bisphosphate binding site; other site 871963004527 Protein of unknown function (DUF456); Region: DUF456; pfam04306 871963004528 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 871963004529 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 871963004530 Ligand binding site; other site 871963004531 Putative Catalytic site; other site 871963004532 DXD motif; other site 871963004533 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 871963004534 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 871963004535 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 871963004536 Predicted oxidoreductase [General function prediction only]; Region: COG3573 871963004537 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 871963004538 active site residue [active] 871963004539 Transposase; Region: DEDD_Tnp_IS110; pfam01548 871963004540 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 871963004541 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 871963004542 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 871963004543 putative active site [active] 871963004544 putative metal binding residues [ion binding]; other site 871963004545 signature motif; other site 871963004546 putative triphosphate binding site [ion binding]; other site 871963004547 lipoprotein LpqB; Provisional; Region: PRK13616 871963004548 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963004549 Zn2+ binding site [ion binding]; other site 871963004550 Mg2+ binding site [ion binding]; other site 871963004551 Flavin Reductases; Region: FlaRed; cl00801 871963004552 Predicted transcriptional regulators [Transcription]; Region: COG1725 871963004553 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963004554 DNA-binding site [nucleotide binding]; DNA binding site 871963004555 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 871963004556 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 871963004557 Walker A/P-loop; other site 871963004558 ATP binding site [chemical binding]; other site 871963004559 Q-loop/lid; other site 871963004560 ABC transporter signature motif; other site 871963004561 Walker B; other site 871963004562 D-loop; other site 871963004563 H-loop/switch region; other site 871963004564 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 871963004565 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 871963004566 Walker A/P-loop; other site 871963004567 ATP binding site [chemical binding]; other site 871963004568 Q-loop/lid; other site 871963004569 ABC transporter signature motif; other site 871963004570 Walker B; other site 871963004571 D-loop; other site 871963004572 H-loop/switch region; other site 871963004573 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 871963004574 catalytic residues [active] 871963004575 Rubrerythrin [Energy production and conversion]; Region: COG1592 871963004576 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 871963004577 iron binding site [ion binding]; other site 871963004578 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 871963004579 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 871963004580 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 871963004581 putative [4Fe-4S] binding site [ion binding]; other site 871963004582 putative molybdopterin cofactor binding site [chemical binding]; other site 871963004583 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 871963004584 molybdopterin cofactor binding site; other site 871963004585 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 871963004586 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 871963004587 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 871963004588 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 871963004589 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 871963004590 molybdopterin cofactor binding site; other site 871963004591 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 871963004592 molybdopterin cofactor binding site; other site 871963004593 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 871963004594 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 871963004595 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 871963004596 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 871963004597 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 871963004598 short chain dehydrogenase; Provisional; Region: PRK06701 871963004599 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 871963004600 NAD binding site [chemical binding]; other site 871963004601 metal binding site [ion binding]; metal-binding site 871963004602 active site 871963004603 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 871963004604 hypothetical protein; Provisional; Region: PRK11770 871963004605 Domain of unknown function (DUF307); Region: DUF307; pfam03733 871963004606 Domain of unknown function (DUF307); Region: DUF307; pfam03733 871963004607 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 871963004608 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963004609 Walker A/P-loop; other site 871963004610 ATP binding site [chemical binding]; other site 871963004611 Q-loop/lid; other site 871963004612 ABC transporter signature motif; other site 871963004613 Walker B; other site 871963004614 D-loop; other site 871963004615 H-loop/switch region; other site 871963004616 TOBE domain; Region: TOBE_2; pfam08402 871963004617 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 871963004618 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 871963004619 dimer interface [polypeptide binding]; other site 871963004620 conserved gate region; other site 871963004621 putative PBP binding loops; other site 871963004622 ABC-ATPase subunit interface; other site 871963004623 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 871963004624 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 871963004625 dimer interface [polypeptide binding]; other site 871963004626 conserved gate region; other site 871963004627 putative PBP binding loops; other site 871963004628 ABC-ATPase subunit interface; other site 871963004629 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 871963004630 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 871963004631 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 871963004632 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963004633 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 871963004634 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 871963004635 Domain of unknown function (DUF1287); Region: DUF1287; pfam06940 871963004636 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 871963004637 putative DNA binding site [nucleotide binding]; other site 871963004638 putative Zn2+ binding site [ion binding]; other site 871963004639 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 871963004640 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963004641 G5 domain; Region: G5; pfam07501 871963004642 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 871963004643 NlpC/P60 family; Region: NLPC_P60; pfam00877 871963004644 Nuclease-related domain; Region: NERD; pfam08378 871963004645 EamA-like transporter family; Region: EamA; pfam00892 871963004646 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 871963004647 EamA-like transporter family; Region: EamA; pfam00892 871963004648 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 871963004649 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 871963004650 non-specific DNA binding site [nucleotide binding]; other site 871963004651 salt bridge; other site 871963004652 sequence-specific DNA binding site [nucleotide binding]; other site 871963004653 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 871963004654 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 871963004655 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 871963004656 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 871963004657 Part of AAA domain; Region: AAA_19; pfam13245 871963004658 Family description; Region: UvrD_C_2; pfam13538 871963004659 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 871963004660 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 871963004661 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 871963004662 S-layer homology domain; Region: SLH; pfam00395 871963004663 YodL-like; Region: YodL; pfam14191 871963004664 SpoVG; Region: SpoVG; pfam04026 871963004665 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 871963004666 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 871963004667 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 871963004668 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 871963004669 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 871963004670 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 871963004671 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 871963004672 Walker A motif; other site 871963004673 ATP binding site [chemical binding]; other site 871963004674 Walker B motif; other site 871963004675 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 871963004676 Protein of unknown function (DUF3852); Region: DUF3852; pfam12963 871963004677 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 871963004678 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 871963004679 cofactor binding site; other site 871963004680 DNA binding site [nucleotide binding] 871963004681 substrate interaction site [chemical binding]; other site 871963004682 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 871963004683 AAA-like domain; Region: AAA_10; pfam12846 871963004684 Domain of unknown function DUF87; Region: DUF87; pfam01935 871963004685 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 871963004686 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 871963004687 putative active site pocket [active] 871963004688 dimerization interface [polypeptide binding]; other site 871963004689 putative catalytic residue [active] 871963004690 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 871963004691 Sel1-like repeats; Region: SEL1; smart00671 871963004692 Sel1-like repeats; Region: SEL1; smart00671 871963004693 Sel1-like repeats; Region: SEL1; smart00671 871963004694 Sel1-like repeats; Region: SEL1; smart00671 871963004695 Sel1-like repeats; Region: SEL1; smart00671 871963004696 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 871963004697 Sel1-like repeats; Region: SEL1; smart00671 871963004698 Sel1-like repeats; Region: SEL1; smart00671 871963004699 CHC2 zinc finger; Region: zf-CHC2; cl17510 871963004700 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 871963004701 Toprim-like; Region: Toprim_2; pfam13155 871963004702 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 871963004703 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 871963004704 Walker A motif; other site 871963004705 ATP binding site [chemical binding]; other site 871963004706 Walker B motif; other site 871963004707 Helix-turn-helix domain; Region: HTH_36; pfam13730 871963004708 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 871963004709 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 871963004710 non-specific DNA binding site [nucleotide binding]; other site 871963004711 salt bridge; other site 871963004712 sequence-specific DNA binding site [nucleotide binding]; other site 871963004713 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 871963004714 non-specific DNA binding site [nucleotide binding]; other site 871963004715 salt bridge; other site 871963004716 sequence-specific DNA binding site [nucleotide binding]; other site 871963004717 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; pfam04014 871963004718 GEMM cis-regulatory element 871963004719 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 871963004720 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 871963004721 catalytic residues [active] 871963004722 catalytic nucleophile [active] 871963004723 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 871963004724 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 871963004725 catalytic residues [active] 871963004726 catalytic nucleophile [active] 871963004727 Recombinase; Region: Recombinase; pfam07508 871963004728 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 871963004729 Recombinase; Region: Recombinase; pfam07508 871963004730 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 871963004731 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 871963004732 catalytic residues [active] 871963004733 catalytic nucleophile [active] 871963004734 Recombinase; Region: Recombinase; pfam07508 871963004735 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 871963004736 Helix-turn-helix domain; Region: HTH_17; cl17695 871963004737 AAA ATPase domain; Region: AAA_15; pfam13175 871963004738 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963004739 Walker A/P-loop; other site 871963004740 ATP binding site [chemical binding]; other site 871963004741 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 871963004742 putative active site [active] 871963004743 putative metal-binding site [ion binding]; other site 871963004744 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 871963004745 Part of AAA domain; Region: AAA_19; pfam13245 871963004746 Family description; Region: UvrD_C_2; pfam13538 871963004747 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 871963004748 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 871963004749 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 871963004750 CoA binding domain; Region: CoA_binding_2; pfam13380 871963004751 cobalt transport protein CbiM; Validated; Region: PRK08319 871963004752 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 871963004753 cobalt transport protein CbiN; Provisional; Region: PRK02898 871963004754 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 871963004755 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13636 871963004756 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 871963004757 Walker A/P-loop; other site 871963004758 ATP binding site [chemical binding]; other site 871963004759 Q-loop/lid; other site 871963004760 ABC transporter signature motif; other site 871963004761 Walker B; other site 871963004762 D-loop; other site 871963004763 H-loop/switch region; other site 871963004764 Helix-turn-helix domain; Region: HTH_17; pfam12728 871963004765 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 871963004766 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 871963004767 S-adenosylmethionine binding site [chemical binding]; other site 871963004768 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 871963004769 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 871963004770 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 871963004771 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 871963004772 ATP binding site [chemical binding]; other site 871963004773 Mg++ binding site [ion binding]; other site 871963004774 motif III; other site 871963004775 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 871963004776 nucleotide binding region [chemical binding]; other site 871963004777 ATP-binding site [chemical binding]; other site 871963004778 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 871963004779 RNA binding site [nucleotide binding]; other site 871963004780 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 871963004781 dimer interface [polypeptide binding]; other site 871963004782 pyridoxal binding site [chemical binding]; other site 871963004783 ATP binding site [chemical binding]; other site 871963004784 Propionate catabolism activator; Region: PrpR_N; pfam06506 871963004785 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 871963004786 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 871963004787 putative active site [active] 871963004788 heme pocket [chemical binding]; other site 871963004789 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 871963004790 Walker A motif; other site 871963004791 ATP binding site [chemical binding]; other site 871963004792 Walker B motif; other site 871963004793 arginine finger; other site 871963004794 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 871963004795 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]; Region: COG1144 871963004796 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 871963004797 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 871963004798 dimer interface [polypeptide binding]; other site 871963004799 PYR/PP interface [polypeptide binding]; other site 871963004800 TPP binding site [chemical binding]; other site 871963004801 substrate binding site [chemical binding]; other site 871963004802 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 871963004803 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 871963004804 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 871963004805 TPP-binding site [chemical binding]; other site 871963004806 putative dimer interface [polypeptide binding]; other site 871963004807 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 871963004808 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 871963004809 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 871963004810 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 871963004811 substrate binding site [chemical binding]; other site 871963004812 ligand binding site [chemical binding]; other site 871963004813 FAD binding domain; Region: FAD_binding_4; pfam01565 871963004814 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 871963004815 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 871963004816 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 871963004817 Cysteine-rich domain; Region: CCG; pfam02754 871963004818 Cysteine-rich domain; Region: CCG; pfam02754 871963004819 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 871963004820 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 871963004821 FeS/SAM binding site; other site 871963004822 serine/threonine transporter SstT; Provisional; Region: PRK13628 871963004823 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 871963004824 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871963004825 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 871963004826 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 871963004827 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 871963004828 Walker A/P-loop; other site 871963004829 ATP binding site [chemical binding]; other site 871963004830 Q-loop/lid; other site 871963004831 ABC transporter signature motif; other site 871963004832 Walker B; other site 871963004833 D-loop; other site 871963004834 H-loop/switch region; other site 871963004835 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871963004836 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 871963004837 putative PBP binding loops; other site 871963004838 ABC-ATPase subunit interface; other site 871963004839 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 871963004840 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 871963004841 substrate binding pocket [chemical binding]; other site 871963004842 membrane-bound complex binding site; other site 871963004843 hinge residues; other site 871963004844 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 871963004845 active site clefts [active] 871963004846 zinc binding site [ion binding]; other site 871963004847 dimer interface [polypeptide binding]; other site 871963004848 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 871963004849 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 871963004850 Uncharacterized conserved protein [Function unknown]; Region: COG2461 871963004851 Family of unknown function (DUF438); Region: DUF438; pfam04282 871963004852 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 871963004853 zinc transporter ZupT; Provisional; Region: PRK04201 871963004854 ZIP Zinc transporter; Region: Zip; pfam02535 871963004855 Predicted membrane protein [Function unknown]; Region: COG2323 871963004856 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 871963004857 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871963004858 active site 871963004859 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963004860 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963004861 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963004862 Bacterial SH3 domain; Region: SH3_3; pfam08239 871963004863 Bacterial SH3 domain; Region: SH3_3; pfam08239 871963004864 Bacterial SH3 domain; Region: SH3_3; pfam08239 871963004865 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 871963004866 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 871963004867 active site 871963004868 metal binding site [ion binding]; metal-binding site 871963004869 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 871963004870 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963004871 ATP binding site [chemical binding]; other site 871963004872 Mg2+ binding site [ion binding]; other site 871963004873 G-X-G motif; other site 871963004874 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 871963004875 anchoring element; other site 871963004876 dimer interface [polypeptide binding]; other site 871963004877 ATP binding site [chemical binding]; other site 871963004878 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 871963004879 active site 871963004880 putative metal-binding site [ion binding]; other site 871963004881 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 871963004882 DNA gyrase subunit A; Validated; Region: PRK05560 871963004883 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 871963004884 CAP-like domain; other site 871963004885 active site 871963004886 primary dimer interface [polypeptide binding]; other site 871963004887 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 871963004888 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 871963004889 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 871963004890 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 871963004891 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 871963004892 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 871963004893 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 871963004894 Walker A motif; other site 871963004895 ATP binding site [chemical binding]; other site 871963004896 Walker B motif; other site 871963004897 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 871963004898 Integrase core domain; Region: rve; pfam00665 871963004899 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 871963004900 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 871963004901 CoenzymeA binding site [chemical binding]; other site 871963004902 subunit interaction site [polypeptide binding]; other site 871963004903 PHB binding site; other site 871963004904 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 871963004905 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 871963004906 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 871963004907 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 871963004908 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 871963004909 DctM-like transporters; Region: DctM; pfam06808 871963004910 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 871963004911 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 871963004912 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 871963004913 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 871963004914 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 871963004915 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 871963004916 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 871963004917 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 871963004918 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 871963004919 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 871963004920 Transposase; Region: HTH_Tnp_1; cl17663 871963004921 Domain of unknown function (DUF1900); Region: DUF1900; pfam08954 871963004922 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 871963004923 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 871963004924 active site 871963004925 FMN binding site [chemical binding]; other site 871963004926 substrate binding site [chemical binding]; other site 871963004927 putative catalytic residue [active] 871963004928 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 871963004929 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 871963004930 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 871963004931 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 871963004932 Peptidase family M23; Region: Peptidase_M23; pfam01551 871963004933 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963004934 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 871963004935 LexA repressor; Validated; Region: PRK00215 871963004936 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 871963004937 Catalytic site [active] 871963004938 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 871963004939 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 871963004940 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 871963004941 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 871963004942 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 871963004943 Catalytic site [active] 871963004944 Aluminium resistance protein; Region: Alum_res; pfam06838 871963004945 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 871963004946 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 871963004947 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 871963004948 HflX GTPase family; Region: HflX; cd01878 871963004949 G1 box; other site 871963004950 GTP/Mg2+ binding site [chemical binding]; other site 871963004951 Switch I region; other site 871963004952 G2 box; other site 871963004953 G3 box; other site 871963004954 Switch II region; other site 871963004955 G4 box; other site 871963004956 G5 box; other site 871963004957 stage V sporulation protein K; Region: spore_V_K; TIGR02881 871963004958 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 871963004959 Walker A motif; other site 871963004960 ATP binding site [chemical binding]; other site 871963004961 Walker B motif; other site 871963004962 arginine finger; other site 871963004963 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 871963004964 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 871963004965 G1 box; other site 871963004966 putative GEF interaction site [polypeptide binding]; other site 871963004967 GTP/Mg2+ binding site [chemical binding]; other site 871963004968 Switch I region; other site 871963004969 G2 box; other site 871963004970 G3 box; other site 871963004971 Switch II region; other site 871963004972 G4 box; other site 871963004973 G5 box; other site 871963004974 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 871963004975 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 871963004976 bacterial Hfq-like; Region: Hfq; cd01716 871963004977 hexamer interface [polypeptide binding]; other site 871963004978 Sm1 motif; other site 871963004979 RNA binding site [nucleotide binding]; other site 871963004980 Sm2 motif; other site 871963004981 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 871963004982 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 871963004983 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 871963004984 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 871963004985 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963004986 ATP binding site [chemical binding]; other site 871963004987 Mg2+ binding site [ion binding]; other site 871963004988 G-X-G motif; other site 871963004989 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 871963004990 ATP binding site [chemical binding]; other site 871963004991 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 871963004992 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 871963004993 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 871963004994 active site 871963004995 Zn binding site [ion binding]; other site 871963004996 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 871963004997 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 871963004998 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 871963004999 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 871963005000 MutS domain I; Region: MutS_I; pfam01624 871963005001 MutS domain II; Region: MutS_II; pfam05188 871963005002 MutS domain III; Region: MutS_III; pfam05192 871963005003 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 871963005004 Walker A/P-loop; other site 871963005005 ATP binding site [chemical binding]; other site 871963005006 Q-loop/lid; other site 871963005007 ABC transporter signature motif; other site 871963005008 Walker B; other site 871963005009 D-loop; other site 871963005010 H-loop/switch region; other site 871963005011 Protein of unknown function (DUF964); Region: DUF964; pfam06133 871963005012 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 871963005013 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 871963005014 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 871963005015 FeS/SAM binding site; other site 871963005016 TRAM domain; Region: TRAM; pfam01938 871963005017 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 871963005018 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 871963005019 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 871963005020 putative substrate-binding site; other site 871963005021 nickel binding site [ion binding]; other site 871963005022 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 871963005023 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 871963005024 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 871963005025 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 871963005026 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 871963005027 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 871963005028 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 871963005029 EDD domain protein, DegV family; Region: DegV; TIGR00762 871963005030 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 871963005031 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 871963005032 active site 871963005033 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963005034 G5 domain; Region: G5; pfam07501 871963005035 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 871963005036 Peptidase family M23; Region: Peptidase_M23; pfam01551 871963005037 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871963005038 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 871963005039 ligand binding site [chemical binding]; other site 871963005040 flexible hinge region; other site 871963005041 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 871963005042 putative switch regulator; other site 871963005043 non-specific DNA interactions [nucleotide binding]; other site 871963005044 DNA binding site [nucleotide binding] 871963005045 sequence specific DNA binding site [nucleotide binding]; other site 871963005046 putative cAMP binding site [chemical binding]; other site 871963005047 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963005048 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 871963005049 pyruvate kinase; Provisional; Region: PRK06354 871963005050 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 871963005051 domain interfaces; other site 871963005052 active site 871963005053 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 871963005054 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 871963005055 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 871963005056 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 871963005057 hypothetical protein; Provisional; Region: PRK06851 871963005058 Virulence-associated protein E; Region: VirE; pfam05272 871963005059 NTPase; Region: NTPase_1; cl17478 871963005060 AAA ATPase domain; Region: AAA_16; pfam13191 871963005061 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 871963005062 putative MPT binding site; other site 871963005063 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871963005064 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 871963005065 ligand binding site [chemical binding]; other site 871963005066 flexible hinge region; other site 871963005067 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 871963005068 putative switch regulator; other site 871963005069 non-specific DNA interactions [nucleotide binding]; other site 871963005070 DNA binding site [nucleotide binding] 871963005071 sequence specific DNA binding site [nucleotide binding]; other site 871963005072 putative cAMP binding site [chemical binding]; other site 871963005073 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 871963005074 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963005075 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 871963005076 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 871963005077 oligomer interface [polypeptide binding]; other site 871963005078 active site 871963005079 metal binding site [ion binding]; metal-binding site 871963005080 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 871963005081 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 871963005082 oligomer interface [polypeptide binding]; other site 871963005083 active site 871963005084 metal binding site [ion binding]; metal-binding site 871963005085 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 871963005086 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 871963005087 oligomer interface [polypeptide binding]; other site 871963005088 active site 871963005089 metal binding site [ion binding]; metal-binding site 871963005090 dipeptidase PepV; Reviewed; Region: PRK07318 871963005091 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 871963005092 active site 871963005093 metal binding site [ion binding]; metal-binding site 871963005094 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 871963005095 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 871963005096 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 871963005097 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 871963005098 Rhomboid family; Region: Rhomboid; pfam01694 871963005099 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 871963005100 putative oxidoreductase FixC; Provisional; Region: PRK10157 871963005101 4Fe-4S binding domain; Region: Fer4_6; pfam12837 871963005102 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 871963005103 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 871963005104 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 871963005105 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 871963005106 Ligand binding site [chemical binding]; other site 871963005107 Electron transfer flavoprotein domain; Region: ETF; pfam01012 871963005108 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 871963005109 Uncharacterized conserved protein [Function unknown]; Region: COG1615 871963005110 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 871963005111 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 871963005112 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 871963005113 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 871963005114 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 871963005115 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 871963005116 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 871963005117 Walker A motif; other site 871963005118 ATP binding site [chemical binding]; other site 871963005119 Walker B motif; other site 871963005120 arginine finger; other site 871963005121 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 871963005122 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 871963005123 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963005124 Zn2+ binding site [ion binding]; other site 871963005125 Mg2+ binding site [ion binding]; other site 871963005126 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 871963005127 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 871963005128 Beta-Casp domain; Region: Beta-Casp; smart01027 871963005129 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 871963005130 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 871963005131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963005132 active site 871963005133 phosphorylation site [posttranslational modification] 871963005134 intermolecular recognition site; other site 871963005135 dimerization interface [polypeptide binding]; other site 871963005136 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 871963005137 DNA binding residues [nucleotide binding] 871963005138 dimerization interface [polypeptide binding]; other site 871963005139 Sensor protein DegS; Region: DegS; pfam05384 871963005140 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 871963005141 Histidine kinase; Region: HisKA_3; pfam07730 871963005142 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963005143 ATP binding site [chemical binding]; other site 871963005144 Mg2+ binding site [ion binding]; other site 871963005145 G-X-G motif; other site 871963005146 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 871963005147 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 871963005148 substrate binding pocket [chemical binding]; other site 871963005149 dimer interface [polypeptide binding]; other site 871963005150 inhibitor binding site; inhibition site 871963005151 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 871963005152 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 871963005153 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 871963005154 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 871963005155 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 871963005156 catalytic loop [active] 871963005157 iron binding site [ion binding]; other site 871963005158 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 871963005159 Putative Fe-S cluster; Region: FeS; pfam04060 871963005160 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 871963005161 Acetyl-CoA synthase (ACS), also known as acetyl-CoA decarbonylase, is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA. ACS forms a heterotetramer with carbon monoxide dehydrogenase (CODH)...; Region: ACS_2; cd01917 871963005162 CODH interaction site; other site 871963005163 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 871963005164 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 871963005165 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 871963005166 ACS interaction site; other site 871963005167 CODH interaction site; other site 871963005168 cubane metal cluster (B-cluster) [ion binding]; other site 871963005169 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 871963005170 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 871963005171 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 871963005172 P-loop; other site 871963005173 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 871963005174 EDD domain protein, DegV family; Region: DegV; TIGR00762 871963005175 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 871963005176 Helix-turn-helix domain; Region: HTH_38; pfam13936 871963005177 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 871963005178 Integrase core domain; Region: rve; pfam00665 871963005179 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 871963005180 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871963005181 Coenzyme A binding pocket [chemical binding]; other site 871963005182 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 871963005183 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 871963005184 catalytic motif [active] 871963005185 Zn binding site [ion binding]; other site 871963005186 RibD C-terminal domain; Region: RibD_C; cl17279 871963005187 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 871963005188 Lumazine binding domain; Region: Lum_binding; pfam00677 871963005189 Lumazine binding domain; Region: Lum_binding; pfam00677 871963005190 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 871963005191 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 871963005192 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 871963005193 dimerization interface [polypeptide binding]; other site 871963005194 active site 871963005195 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 871963005196 homopentamer interface [polypeptide binding]; other site 871963005197 active site 871963005198 RNA polymerase factor sigma-70; Validated; Region: PRK08295 871963005199 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963005200 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 871963005201 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 871963005202 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 871963005203 Clp amino terminal domain; Region: Clp_N; pfam02861 871963005204 Clp amino terminal domain; Region: Clp_N; pfam02861 871963005205 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 871963005206 Walker A motif; other site 871963005207 ATP binding site [chemical binding]; other site 871963005208 Walker B motif; other site 871963005209 arginine finger; other site 871963005210 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 871963005211 Walker A motif; other site 871963005212 ATP binding site [chemical binding]; other site 871963005213 Walker B motif; other site 871963005214 arginine finger; other site 871963005215 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 871963005216 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 871963005217 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 871963005218 active site 871963005219 substrate binding site [chemical binding]; other site 871963005220 metal binding site [ion binding]; metal-binding site 871963005221 EDD domain protein, DegV family; Region: DegV; TIGR00762 871963005222 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 871963005223 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 871963005224 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 871963005225 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 871963005226 glyoxylate reductase; Reviewed; Region: PRK13243 871963005227 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 871963005228 dimerization interface [polypeptide binding]; other site 871963005229 ligand binding site [chemical binding]; other site 871963005230 NADP binding site [chemical binding]; other site 871963005231 catalytic site [active] 871963005232 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963005233 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 871963005234 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 871963005235 zinc binding site [ion binding]; other site 871963005236 putative ligand binding site [chemical binding]; other site 871963005237 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 871963005238 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 871963005239 TM-ABC transporter signature motif; other site 871963005240 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 871963005241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963005242 Walker A/P-loop; other site 871963005243 ATP binding site [chemical binding]; other site 871963005244 Q-loop/lid; other site 871963005245 ABC transporter signature motif; other site 871963005246 Walker B; other site 871963005247 D-loop; other site 871963005248 H-loop/switch region; other site 871963005249 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 871963005250 Part of AAA domain; Region: AAA_19; pfam13245 871963005251 Family description; Region: UvrD_C_2; pfam13538 871963005252 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 871963005253 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 871963005254 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 871963005255 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 871963005256 Uncharacterized conserved protein [Function unknown]; Region: COG1284 871963005257 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 871963005258 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 871963005259 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 871963005260 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 871963005261 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963005262 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 871963005263 DNA binding residues [nucleotide binding] 871963005264 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 871963005265 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 871963005266 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 871963005267 putative active site [active] 871963005268 catalytic site [active] 871963005269 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 871963005270 putative active site [active] 871963005271 catalytic site [active] 871963005272 Chromate transporter; Region: Chromate_transp; pfam02417 871963005273 Chromate transporter; Region: Chromate_transp; pfam02417 871963005274 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 871963005275 dinuclear metal binding motif [ion binding]; other site 871963005276 PspC domain; Region: PspC; pfam04024 871963005277 Transposase, Mutator family; Region: Transposase_mut; pfam00872 871963005278 MULE transposase domain; Region: MULE; pfam10551 871963005279 Transposase; Region: DEDD_Tnp_IS110; pfam01548 871963005280 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 871963005281 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 871963005282 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 871963005283 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 871963005284 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 871963005285 Walker A/P-loop; other site 871963005286 ATP binding site [chemical binding]; other site 871963005287 Q-loop/lid; other site 871963005288 ABC transporter signature motif; other site 871963005289 Walker B; other site 871963005290 D-loop; other site 871963005291 H-loop/switch region; other site 871963005292 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 871963005293 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 871963005294 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963005295 Walker A/P-loop; other site 871963005296 ATP binding site [chemical binding]; other site 871963005297 Q-loop/lid; other site 871963005298 ABC transporter signature motif; other site 871963005299 Walker B; other site 871963005300 D-loop; other site 871963005301 H-loop/switch region; other site 871963005302 Helix-turn-helix domain; Region: HTH_38; pfam13936 871963005303 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 871963005304 Integrase core domain; Region: rve; pfam00665 871963005305 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 871963005306 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 871963005307 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 871963005308 active site residue [active] 871963005309 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 871963005310 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 871963005311 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 871963005312 substrate binding site [chemical binding]; other site 871963005313 oxyanion hole (OAH) forming residues; other site 871963005314 trimer interface [polypeptide binding]; other site 871963005315 putative acyltransferase; Provisional; Region: PRK05790 871963005316 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 871963005317 dimer interface [polypeptide binding]; other site 871963005318 active site 871963005319 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 871963005320 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 871963005321 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 871963005322 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 871963005323 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963005324 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871963005325 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 871963005326 ligand binding site [chemical binding]; other site 871963005327 flexible hinge region; other site 871963005328 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 871963005329 putative switch regulator; other site 871963005330 non-specific DNA interactions [nucleotide binding]; other site 871963005331 DNA binding site [nucleotide binding] 871963005332 sequence specific DNA binding site [nucleotide binding]; other site 871963005333 putative cAMP binding site [chemical binding]; other site 871963005334 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 871963005335 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 871963005336 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 871963005337 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 871963005338 Ligand binding site [chemical binding]; other site 871963005339 Electron transfer flavoprotein domain; Region: ETF; pfam01012 871963005340 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871963005341 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 871963005342 FAD binding site [chemical binding]; other site 871963005343 homotetramer interface [polypeptide binding]; other site 871963005344 substrate binding pocket [chemical binding]; other site 871963005345 catalytic base [active] 871963005346 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 871963005347 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 871963005348 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 871963005349 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963005350 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 871963005351 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 871963005352 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 871963005353 GTPase RsgA; Reviewed; Region: PRK01889 871963005354 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 871963005355 RNA binding site [nucleotide binding]; other site 871963005356 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 871963005357 GTPase/Zn-binding domain interface [polypeptide binding]; other site 871963005358 GTP/Mg2+ binding site [chemical binding]; other site 871963005359 G4 box; other site 871963005360 G5 box; other site 871963005361 G1 box; other site 871963005362 Switch I region; other site 871963005363 G2 box; other site 871963005364 G3 box; other site 871963005365 Switch II region; other site 871963005366 hypothetical protein; Provisional; Region: PRK13665 871963005367 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 871963005368 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 871963005369 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 871963005370 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 871963005371 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 871963005372 S1 domain; Region: S1_2; pfam13509 871963005373 S1 domain; Region: S1_2; pfam13509 871963005374 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 871963005375 RNA binding site [nucleotide binding]; other site 871963005376 Cation transport protein; Region: TrkH; cl17365 871963005377 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 871963005378 Cation transport protein; Region: TrkH; cl17365 871963005379 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 871963005380 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 871963005381 TrkA-N domain; Region: TrkA_N; pfam02254 871963005382 TrkA-C domain; Region: TrkA_C; pfam02080 871963005383 TrkA-N domain; Region: TrkA_N; pfam02254 871963005384 TrkA-C domain; Region: TrkA_C; pfam02080 871963005385 multidrug efflux protein; Reviewed; Region: PRK01766 871963005386 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 871963005387 cation binding site [ion binding]; other site 871963005388 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 871963005389 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 871963005390 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 871963005391 Cysteine-rich domain; Region: CCG; pfam02754 871963005392 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 871963005393 AIR carboxylase; Region: AIRC; smart01001 871963005394 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963005395 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963005396 active site 871963005397 phosphorylation site [posttranslational modification] 871963005398 intermolecular recognition site; other site 871963005399 dimerization interface [polypeptide binding]; other site 871963005400 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 871963005401 DNA binding site [nucleotide binding] 871963005402 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 871963005403 HAMP domain; Region: HAMP; pfam00672 871963005404 dimerization interface [polypeptide binding]; other site 871963005405 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963005406 dimer interface [polypeptide binding]; other site 871963005407 phosphorylation site [posttranslational modification] 871963005408 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963005409 ATP binding site [chemical binding]; other site 871963005410 Mg2+ binding site [ion binding]; other site 871963005411 G-X-G motif; other site 871963005412 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 871963005413 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 871963005414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963005415 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 871963005416 Walker A/P-loop; other site 871963005417 ATP binding site [chemical binding]; other site 871963005418 Q-loop/lid; other site 871963005419 ABC transporter signature motif; other site 871963005420 Walker B; other site 871963005421 D-loop; other site 871963005422 H-loop/switch region; other site 871963005423 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 871963005424 Radical SAM superfamily; Region: Radical_SAM; pfam04055 871963005425 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 871963005426 FeS/SAM binding site; other site 871963005427 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 871963005428 DEAD-like helicases superfamily; Region: DEXDc; smart00487 871963005429 ATP binding site [chemical binding]; other site 871963005430 putative Mg++ binding site [ion binding]; other site 871963005431 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 871963005432 nucleotide binding region [chemical binding]; other site 871963005433 ATP-binding site [chemical binding]; other site 871963005434 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871963005435 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 871963005436 putative substrate translocation pore; other site 871963005437 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 871963005438 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 871963005439 ATP binding site [chemical binding]; other site 871963005440 putative Mg++ binding site [ion binding]; other site 871963005441 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 871963005442 nucleotide binding region [chemical binding]; other site 871963005443 ATP-binding site [chemical binding]; other site 871963005444 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 871963005445 HRDC domain; Region: HRDC; pfam00570 871963005446 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 871963005447 B12 binding site [chemical binding]; other site 871963005448 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 871963005449 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963005450 DNA-binding site [nucleotide binding]; DNA binding site 871963005451 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 871963005452 CmuA_CmuC_like: uncharacterized protein family similar to uroporphyrinogen decarboxylase (URO-D) and the methyltransferases CmuA and CmuC; Region: CmuA_CmuC_like; cd03308 871963005453 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 871963005454 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 871963005455 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 871963005456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 871963005457 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 871963005458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 871963005459 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 871963005460 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963005461 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 871963005462 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 871963005463 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 871963005464 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 871963005465 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 871963005466 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 871963005467 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 871963005468 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 871963005469 hydrophobic ligand binding site; other site 871963005470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 871963005471 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 871963005472 ArsC family; Region: ArsC; pfam03960 871963005473 catalytic residue [active] 871963005474 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 871963005475 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 871963005476 dimerization interface [polypeptide binding]; other site 871963005477 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963005478 dimer interface [polypeptide binding]; other site 871963005479 phosphorylation site [posttranslational modification] 871963005480 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963005481 ATP binding site [chemical binding]; other site 871963005482 Mg2+ binding site [ion binding]; other site 871963005483 G-X-G motif; other site 871963005484 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963005485 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963005486 active site 871963005487 phosphorylation site [posttranslational modification] 871963005488 intermolecular recognition site; other site 871963005489 dimerization interface [polypeptide binding]; other site 871963005490 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 871963005491 DNA binding site [nucleotide binding] 871963005492 Amidohydrolase; Region: Amidohydro_4; pfam13147 871963005493 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 871963005494 active site 871963005495 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 871963005496 CoenzymeA binding site [chemical binding]; other site 871963005497 subunit interaction site [polypeptide binding]; other site 871963005498 PHB binding site; other site 871963005499 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 871963005500 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 871963005501 active site 871963005502 Zn binding site [ion binding]; other site 871963005503 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 871963005504 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 871963005505 RNA/DNA hybrid binding site [nucleotide binding]; other site 871963005506 active site 871963005507 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_2; cd06160 871963005508 Peptidase family M50; Region: Peptidase_M50; pfam02163 871963005509 active site 871963005510 putative substrate binding region [chemical binding]; other site 871963005511 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 871963005512 DEAD/DEAH box helicase; Region: DEAD; pfam00270 871963005513 DEAD_2; Region: DEAD_2; pfam06733 871963005514 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 871963005515 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 871963005516 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 871963005517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963005518 homodimer interface [polypeptide binding]; other site 871963005519 catalytic residue [active] 871963005520 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 871963005521 putative active site [active] 871963005522 putative metal binding site [ion binding]; other site 871963005523 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 871963005524 active site 871963005525 catalytic site [active] 871963005526 substrate binding site [chemical binding]; other site 871963005527 Peptidase family M48; Region: Peptidase_M48; pfam01435 871963005528 Protein of unknown function, DUF606; Region: DUF606; pfam04657 871963005529 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 871963005530 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 871963005531 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 871963005532 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 871963005533 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 871963005534 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 871963005535 BON domain; Region: BON; pfam04972 871963005536 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 871963005537 BON domain; Region: BON; pfam04972 871963005538 BON domain; Region: BON; pfam04972 871963005539 BON domain; Region: BON; pfam04972 871963005540 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 871963005541 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 871963005542 active site 871963005543 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 871963005544 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 871963005545 PAS domain; Region: PAS_9; pfam13426 871963005546 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 871963005547 putative active site [active] 871963005548 heme pocket [chemical binding]; other site 871963005549 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 871963005550 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 871963005551 Walker A motif; other site 871963005552 ATP binding site [chemical binding]; other site 871963005553 Walker B motif; other site 871963005554 arginine finger; other site 871963005555 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 871963005556 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 871963005557 elongation factor G; Reviewed; Region: PRK12740 871963005558 G1 box; other site 871963005559 putative GEF interaction site [polypeptide binding]; other site 871963005560 GTP/Mg2+ binding site [chemical binding]; other site 871963005561 Switch I region; other site 871963005562 G2 box; other site 871963005563 G3 box; other site 871963005564 Switch II region; other site 871963005565 G4 box; other site 871963005566 G5 box; other site 871963005567 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 871963005568 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 871963005569 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 871963005570 isoaspartyl dipeptidase; Provisional; Region: PRK10657 871963005571 Isoaspartyl dipeptidase hydrolyzes the beta-L-isoaspartyl linkages in dipeptides, as part of the degradative pathway to eliminate proteins with beta-L-isoaspartyl peptide bonds, bonds whereby the beta-group of an aspartate forms the peptide link with the...; Region: Isoaspartyl-dipeptidase; cd01308 871963005572 dimer interface [polypeptide binding]; other site 871963005573 active site 871963005574 stage V sporulation protein B; Region: spore_V_B; TIGR02900 871963005575 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 871963005576 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 871963005577 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 871963005578 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 871963005579 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 871963005580 homodecamer interface [polypeptide binding]; other site 871963005581 GTP cyclohydrolase I; Provisional; Region: PLN03044 871963005582 active site 871963005583 putative catalytic site residues [active] 871963005584 zinc binding site [ion binding]; other site 871963005585 GTP-CH-I/GFRP interaction surface; other site 871963005586 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 871963005587 TPR motif; other site 871963005588 TPR repeat; Region: TPR_11; pfam13414 871963005589 binding surface 871963005590 TPR repeat; Region: TPR_11; pfam13414 871963005591 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 871963005592 binding surface 871963005593 TPR motif; other site 871963005594 TPR repeat; Region: TPR_11; pfam13414 871963005595 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 871963005596 binding surface 871963005597 TPR motif; other site 871963005598 TPR repeat; Region: TPR_11; pfam13414 871963005599 TPR repeat; Region: TPR_11; pfam13414 871963005600 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 871963005601 binding surface 871963005602 TPR motif; other site 871963005603 TPR repeat; Region: TPR_11; pfam13414 871963005604 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 871963005605 metal binding site 2 [ion binding]; metal-binding site 871963005606 putative DNA binding helix; other site 871963005607 metal binding site 1 [ion binding]; metal-binding site 871963005608 dimer interface [polypeptide binding]; other site 871963005609 structural Zn2+ binding site [ion binding]; other site 871963005610 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 871963005611 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 871963005612 putative RNA binding site [nucleotide binding]; other site 871963005613 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 871963005614 S-adenosylmethionine binding site [chemical binding]; other site 871963005615 Uncharacterized protein family (UPF0180); Region: UPF0180; cl04214 871963005616 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 871963005617 Peptidase family M28; Region: Peptidase_M28; pfam04389 871963005618 metal binding site [ion binding]; metal-binding site 871963005619 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 871963005620 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 871963005621 PLD-like domain; Region: PLDc_2; pfam13091 871963005622 putative active site [active] 871963005623 catalytic site [active] 871963005624 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 871963005625 PLD-like domain; Region: PLDc_2; pfam13091 871963005626 putative active site [active] 871963005627 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 871963005628 catalytic core [active] 871963005629 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 871963005630 cell division protein FtsA; Region: ftsA; TIGR01174 871963005631 Cell division protein FtsA; Region: FtsA; smart00842 871963005632 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 871963005633 nucleotide binding site [chemical binding]; other site 871963005634 6-phosphofructokinase; Provisional; Region: PRK03202 871963005635 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 871963005636 active site 871963005637 ADP/pyrophosphate binding site [chemical binding]; other site 871963005638 dimerization interface [polypeptide binding]; other site 871963005639 allosteric effector site; other site 871963005640 fructose-1,6-bisphosphate binding site; other site 871963005641 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 871963005642 AAA domain; Region: AAA_22; pfam13401 871963005643 Walker A motif; other site 871963005644 ATP binding site [chemical binding]; other site 871963005645 Walker B motif; other site 871963005646 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 871963005647 DnaA box-binding interface [nucleotide binding]; other site 871963005648 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 871963005649 active site 871963005650 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 871963005651 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 871963005652 intersubunit interface [polypeptide binding]; other site 871963005653 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 871963005654 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 871963005655 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 871963005656 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 871963005657 ABC-ATPase subunit interface; other site 871963005658 dimer interface [polypeptide binding]; other site 871963005659 putative PBP binding regions; other site 871963005660 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 871963005661 metal binding site 2 [ion binding]; metal-binding site 871963005662 putative DNA binding helix; other site 871963005663 metal binding site 1 [ion binding]; metal-binding site 871963005664 dimer interface [polypeptide binding]; other site 871963005665 structural Zn2+ binding site [ion binding]; other site 871963005666 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 871963005667 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 871963005668 SpoVR like protein; Region: SpoVR; pfam04293 871963005669 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 871963005670 sporulation protein YhbH; Region: spore_yhbH; TIGR02877 871963005671 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 871963005672 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 871963005673 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 871963005674 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 871963005675 homodimer interface [polypeptide binding]; other site 871963005676 Walker A motif; other site 871963005677 ATP binding site [chemical binding]; other site 871963005678 hydroxycobalamin binding site [chemical binding]; other site 871963005679 Walker B motif; other site 871963005680 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 871963005681 Tetratricopeptide repeat; Region: TPR_12; pfam13424 871963005682 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 871963005683 binding surface 871963005684 TPR motif; other site 871963005685 polysaccharide deacetylase family sporulation protein PdaB; Region: spore_ybaN_pdaB; TIGR02764 871963005686 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 871963005687 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 871963005688 Uncharacterized conserved protein [Function unknown]; Region: COG1284 871963005689 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 871963005690 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 871963005691 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 871963005692 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 871963005693 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 871963005694 TMP-binding site; other site 871963005695 ATP-binding site [chemical binding]; other site 871963005696 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 871963005697 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 871963005698 peptide binding site [polypeptide binding]; other site 871963005699 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 871963005700 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 871963005701 Walker A/P-loop; other site 871963005702 ATP binding site [chemical binding]; other site 871963005703 Q-loop/lid; other site 871963005704 ABC transporter signature motif; other site 871963005705 Walker B; other site 871963005706 D-loop; other site 871963005707 H-loop/switch region; other site 871963005708 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 871963005709 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 871963005710 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 871963005711 Walker A/P-loop; other site 871963005712 ATP binding site [chemical binding]; other site 871963005713 Q-loop/lid; other site 871963005714 ABC transporter signature motif; other site 871963005715 Walker B; other site 871963005716 D-loop; other site 871963005717 H-loop/switch region; other site 871963005718 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 871963005719 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 871963005720 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 871963005721 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 871963005722 dimer interface [polypeptide binding]; other site 871963005723 conserved gate region; other site 871963005724 putative PBP binding loops; other site 871963005725 ABC-ATPase subunit interface; other site 871963005726 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 871963005727 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 871963005728 dimer interface [polypeptide binding]; other site 871963005729 conserved gate region; other site 871963005730 putative PBP binding loops; other site 871963005731 ABC-ATPase subunit interface; other site 871963005732 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 871963005733 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963005734 active site 871963005735 phosphorylation site [posttranslational modification] 871963005736 intermolecular recognition site; other site 871963005737 dimerization interface [polypeptide binding]; other site 871963005738 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 871963005739 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 871963005740 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871963005741 Coenzyme A binding pocket [chemical binding]; other site 871963005742 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 871963005743 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 871963005744 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 871963005745 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 871963005746 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 871963005747 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 871963005748 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 871963005749 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 871963005750 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 871963005751 active site 871963005752 catalytic site [active] 871963005753 substrate binding site [chemical binding]; other site 871963005754 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 871963005755 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 871963005756 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 871963005757 putative Mg++ binding site [ion binding]; other site 871963005758 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 871963005759 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 871963005760 Herpesvirus large structural phosphoprotein UL32; Region: Herpes_UL32; pfam06070 871963005761 Predicted metal-binding protein (DUF2103); Region: DUF2103; cl01651 871963005762 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 871963005763 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 871963005764 active site 871963005765 metal binding site [ion binding]; metal-binding site 871963005766 homotetramer interface [polypeptide binding]; other site 871963005767 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 871963005768 H+ Antiporter protein; Region: 2A0121; TIGR00900 871963005769 putative substrate translocation pore; other site 871963005770 Methyltransferase in polyketide synthase (PKS) enzymes; Region: PKS_MT; smart00828 871963005771 Protein of unknown function, DUF606; Region: DUF606; pfam04657 871963005772 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 871963005773 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 871963005774 GIY-YIG motif/motif A; other site 871963005775 active site 871963005776 catalytic site [active] 871963005777 putative DNA binding site [nucleotide binding]; other site 871963005778 metal binding site [ion binding]; metal-binding site 871963005779 UvrB/uvrC motif; Region: UVR; pfam02151 871963005780 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 871963005781 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 871963005782 DNA binding site [nucleotide binding] 871963005783 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 871963005784 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 871963005785 homotetramer interface [polypeptide binding]; other site 871963005786 ligand binding site [chemical binding]; other site 871963005787 catalytic site [active] 871963005788 NAD binding site [chemical binding]; other site 871963005789 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 871963005790 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 871963005791 Walker A motif; other site 871963005792 oligoendopeptidase F; Region: pepF; TIGR00181 871963005793 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 871963005794 active site 871963005795 Zn binding site [ion binding]; other site 871963005796 prephenate dehydratase; Provisional; Region: PRK11898 871963005797 Prephenate dehydratase; Region: PDT; pfam00800 871963005798 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 871963005799 putative L-Phe binding site [chemical binding]; other site 871963005800 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 871963005801 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 871963005802 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963005803 catalytic residue [active] 871963005804 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 871963005805 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 871963005806 active site 871963005807 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 871963005808 active site 1 [active] 871963005809 dimer interface [polypeptide binding]; other site 871963005810 hexamer interface [polypeptide binding]; other site 871963005811 active site 2 [active] 871963005812 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 871963005813 GIY-YIG motif/motif A; other site 871963005814 putative active site [active] 871963005815 putative metal binding site [ion binding]; other site 871963005816 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 871963005817 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 871963005818 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 871963005819 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 871963005820 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 871963005821 minor groove reading motif; other site 871963005822 helix-hairpin-helix signature motif; other site 871963005823 substrate binding pocket [chemical binding]; other site 871963005824 active site 871963005825 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 871963005826 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 871963005827 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963005828 Zn2+ binding site [ion binding]; other site 871963005829 Mg2+ binding site [ion binding]; other site 871963005830 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 871963005831 VanW like protein; Region: VanW; pfam04294 871963005832 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 871963005833 PRC-barrel domain; Region: PRC; pfam05239 871963005834 Uncharacterized conserved protein [Function unknown]; Region: COG1739 871963005835 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 871963005836 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 871963005837 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; cd03440 871963005838 active site 1 [active] 871963005839 active site 2 [active] 871963005840 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 871963005841 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 871963005842 S-adenosylmethionine binding site [chemical binding]; other site 871963005843 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 871963005844 active site 871963005845 homotetramer interface [polypeptide binding]; other site 871963005846 homodimer interface [polypeptide binding]; other site 871963005847 Late competence development protein ComFB; Region: ComFB; pfam10719 871963005848 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871963005849 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 871963005850 ligand binding site [chemical binding]; other site 871963005851 flexible hinge region; other site 871963005852 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 871963005853 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 871963005854 ATP binding site [chemical binding]; other site 871963005855 putative Mg++ binding site [ion binding]; other site 871963005856 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 871963005857 nucleotide binding region [chemical binding]; other site 871963005858 ATP-binding site [chemical binding]; other site 871963005859 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 871963005860 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 871963005861 Rubredoxin; Region: Rubredoxin; pfam00301 871963005862 iron binding site [ion binding]; other site 871963005863 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 871963005864 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 871963005865 motif II; other site 871963005866 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 871963005867 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 871963005868 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 871963005869 Cysteine-rich domain; Region: CCG; pfam02754 871963005870 Cysteine-rich domain; Region: CCG; pfam02754 871963005871 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 871963005872 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 871963005873 Malic enzyme, N-terminal domain; Region: malic; pfam00390 871963005874 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 871963005875 putative NAD(P) binding site [chemical binding]; other site 871963005876 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 871963005877 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 871963005878 CoA binding domain; Region: CoA_binding; smart00881 871963005879 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 871963005880 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 871963005881 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 871963005882 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 871963005883 binding surface 871963005884 TPR motif; other site 871963005885 Tetratricopeptide repeat; Region: TPR_12; pfam13424 871963005886 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 871963005887 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871963005888 Coenzyme A binding pocket [chemical binding]; other site 871963005889 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 871963005890 homodimer interface [polypeptide binding]; other site 871963005891 homotetramer interface [polypeptide binding]; other site 871963005892 active site pocket [active] 871963005893 cleavage site 871963005894 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871963005895 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 871963005896 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 871963005897 conserved hypothetical protein; Region: TIGR02231 871963005898 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 871963005899 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 871963005900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963005901 homodimer interface [polypeptide binding]; other site 871963005902 catalytic residue [active] 871963005903 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 871963005904 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 871963005905 active site 871963005906 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 871963005907 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 871963005908 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 871963005909 active site 871963005910 dimer interface [polypeptide binding]; other site 871963005911 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 871963005912 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 871963005913 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 871963005914 putative active site [active] 871963005915 metal binding site [ion binding]; metal-binding site 871963005916 homodimer binding site [polypeptide binding]; other site 871963005917 phosphodiesterase; Provisional; Region: PRK12704 871963005918 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 871963005919 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963005920 Zn2+ binding site [ion binding]; other site 871963005921 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 871963005922 Mg2+ binding site [ion binding]; other site 871963005923 Uncharacterized protein conserved in bacteria [General function prediction only]; Region: OraA; COG2137 871963005924 recombinase A; Provisional; Region: recA; PRK09354 871963005925 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 871963005926 hexamer interface [polypeptide binding]; other site 871963005927 Walker A motif; other site 871963005928 ATP binding site [chemical binding]; other site 871963005929 Walker B motif; other site 871963005930 helicase 45; Provisional; Region: PTZ00424 871963005931 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 871963005932 ATP binding site [chemical binding]; other site 871963005933 Mg++ binding site [ion binding]; other site 871963005934 motif III; other site 871963005935 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 871963005936 nucleotide binding region [chemical binding]; other site 871963005937 ATP-binding site [chemical binding]; other site 871963005938 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 871963005939 RNA binding site [nucleotide binding]; other site 871963005940 competence damage-inducible protein A; Provisional; Region: PRK00549 871963005941 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 871963005942 putative MPT binding site; other site 871963005943 Competence-damaged protein; Region: CinA; pfam02464 871963005944 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 871963005945 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 871963005946 Walker A motif; other site 871963005947 ATP binding site [chemical binding]; other site 871963005948 Walker B motif; other site 871963005949 arginine finger; other site 871963005950 Peptidase family M41; Region: Peptidase_M41; pfam01434 871963005951 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 871963005952 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 871963005953 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 871963005954 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 871963005955 FeS/SAM binding site; other site 871963005956 TRAM domain; Region: TRAM; pfam01938 871963005957 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 871963005958 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 871963005959 hypothetical protein; Provisional; Region: PRK00955 871963005960 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 871963005961 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 871963005962 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 871963005963 Helix-turn-helix domain; Region: HTH_25; pfam13413 871963005964 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 871963005965 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 871963005966 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 871963005967 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 871963005968 active site residue [active] 871963005969 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 871963005970 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 871963005971 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 871963005972 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 871963005973 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 871963005974 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 871963005975 active site 871963005976 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 871963005977 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963005978 Walker A/P-loop; other site 871963005979 ATP binding site [chemical binding]; other site 871963005980 Q-loop/lid; other site 871963005981 ABC transporter signature motif; other site 871963005982 Walker B; other site 871963005983 D-loop; other site 871963005984 H-loop/switch region; other site 871963005985 ABC transporter; Region: ABC_tran_2; pfam12848 871963005986 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 871963005987 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 871963005988 Protein of unknown function (DUF2695); Region: DUF2695; pfam10905 871963005989 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 871963005990 S-adenosylmethionine binding site [chemical binding]; other site 871963005991 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 871963005992 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 871963005993 putative substrate translocation pore; other site 871963005994 Glucokinase; Region: Glucokinase; pfam02685 871963005995 glucokinase, proteobacterial type; Region: glk; TIGR00749 871963005996 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 871963005997 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 871963005998 active site 871963005999 dimer interface [polypeptide binding]; other site 871963006000 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 871963006001 dimer interface [polypeptide binding]; other site 871963006002 active site 871963006003 putative bifunctional 4-alpha-glucanotransferase/glycogen debranching enzyme; Provisional; Region: PRK14510 871963006004 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 871963006005 active site 871963006006 homodimer interface [polypeptide binding]; other site 871963006007 catalytic site [active] 871963006008 4-alpha-glucanotransferase; Provisional; Region: PRK14508 871963006009 glycogen synthase; Provisional; Region: glgA; PRK00654 871963006010 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 871963006011 ADP-binding pocket [chemical binding]; other site 871963006012 homodimer interface [polypeptide binding]; other site 871963006013 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 871963006014 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 871963006015 ligand binding site; other site 871963006016 oligomer interface; other site 871963006017 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 871963006018 dimer interface [polypeptide binding]; other site 871963006019 N-terminal domain interface [polypeptide binding]; other site 871963006020 sulfate 1 binding site; other site 871963006021 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 871963006022 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 871963006023 ligand binding site; other site 871963006024 oligomer interface; other site 871963006025 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 871963006026 dimer interface [polypeptide binding]; other site 871963006027 N-terminal domain interface [polypeptide binding]; other site 871963006028 sulfate 1 binding site; other site 871963006029 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 871963006030 homodimer interface [polypeptide binding]; other site 871963006031 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 871963006032 active site pocket [active] 871963006033 glycogen branching enzyme; Provisional; Region: PRK12313 871963006034 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 871963006035 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 871963006036 active site 871963006037 catalytic site [active] 871963006038 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 871963006039 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 871963006040 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 871963006041 Sulfatase; Region: Sulfatase; pfam00884 871963006042 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 871963006043 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 871963006044 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 871963006045 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_2; cd04602 871963006046 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 871963006047 active site 871963006048 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 871963006049 HD domain; Region: HD_3; pfam13023 871963006050 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 871963006051 Ligand Binding Site [chemical binding]; other site 871963006052 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 871963006053 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 871963006054 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963006055 Walker A/P-loop; other site 871963006056 ATP binding site [chemical binding]; other site 871963006057 Q-loop/lid; other site 871963006058 ABC transporter signature motif; other site 871963006059 Walker B; other site 871963006060 D-loop; other site 871963006061 H-loop/switch region; other site 871963006062 ABC transporter; Region: ABC_tran_2; pfam12848 871963006063 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 871963006064 peptidase T; Region: peptidase-T; TIGR01882 871963006065 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 871963006066 metal binding site [ion binding]; metal-binding site 871963006067 dimer interface [polypeptide binding]; other site 871963006068 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 871963006069 Major Facilitator Superfamily; Region: MFS_1; pfam07690 871963006070 putative substrate translocation pore; other site 871963006071 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 871963006072 FAD binding domain; Region: FAD_binding_4; pfam01565 871963006073 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 871963006074 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 871963006075 heat shock protein 90; Provisional; Region: PRK05218 871963006076 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963006077 ATP binding site [chemical binding]; other site 871963006078 Mg2+ binding site [ion binding]; other site 871963006079 G-X-G motif; other site 871963006080 RmuC family; Region: RmuC; pfam02646 871963006081 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871963006082 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 871963006083 ligand binding site [chemical binding]; other site 871963006084 flexible hinge region; other site 871963006085 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 871963006086 putative switch regulator; other site 871963006087 non-specific DNA interactions [nucleotide binding]; other site 871963006088 DNA binding site [nucleotide binding] 871963006089 sequence specific DNA binding site [nucleotide binding]; other site 871963006090 putative cAMP binding site [chemical binding]; other site 871963006091 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 871963006092 Protein export membrane protein; Region: SecD_SecF; cl14618 871963006093 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 871963006094 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 871963006095 HlyD family secretion protein; Region: HlyD_3; pfam13437 871963006096 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871963006097 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 871963006098 DNA topoisomerase III; Provisional; Region: PRK07726 871963006099 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 871963006100 active site 871963006101 putative interdomain interaction site [polypeptide binding]; other site 871963006102 putative metal-binding site [ion binding]; other site 871963006103 putative nucleotide binding site [chemical binding]; other site 871963006104 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 871963006105 domain I; other site 871963006106 DNA binding groove [nucleotide binding] 871963006107 phosphate binding site [ion binding]; other site 871963006108 domain II; other site 871963006109 domain III; other site 871963006110 nucleotide binding site [chemical binding]; other site 871963006111 catalytic site [active] 871963006112 domain IV; other site 871963006113 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 871963006114 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 871963006115 CAAX protease self-immunity; Region: Abi; pfam02517 871963006116 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 871963006117 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 871963006118 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 871963006119 aspartate kinase; Validated; Region: PRK09181 871963006120 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 871963006121 putative catalytic residues [active] 871963006122 putative nucleotide binding site [chemical binding]; other site 871963006123 putative aspartate binding site [chemical binding]; other site 871963006124 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 871963006125 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 871963006126 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963006127 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 871963006128 endonuclease III; Region: ENDO3c; smart00478 871963006129 minor groove reading motif; other site 871963006130 helix-hairpin-helix signature motif; other site 871963006131 substrate binding pocket [chemical binding]; other site 871963006132 active site 871963006133 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871963006134 Coenzyme A binding pocket [chemical binding]; other site 871963006135 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 871963006136 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 871963006137 motif II; other site 871963006138 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 871963006139 ABC1 family; Region: ABC1; pfam03109 871963006140 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 871963006141 active site 871963006142 ATP binding site [chemical binding]; other site 871963006143 Uncharacterized conserved protein [Function unknown]; Region: COG3937 871963006144 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 871963006145 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 871963006146 putative binding site residues; other site 871963006147 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 871963006148 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 871963006149 ABC-ATPase subunit interface; other site 871963006150 dimer interface [polypeptide binding]; other site 871963006151 putative PBP binding regions; other site 871963006152 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 871963006153 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 871963006154 Walker A/P-loop; other site 871963006155 ATP binding site [chemical binding]; other site 871963006156 Q-loop/lid; other site 871963006157 ABC transporter signature motif; other site 871963006158 Walker B; other site 871963006159 D-loop; other site 871963006160 H-loop/switch region; other site 871963006161 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 871963006162 NlpC/P60 family; Region: NLPC_P60; pfam00877 871963006163 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 871963006164 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 871963006165 G1 box; other site 871963006166 putative GEF interaction site [polypeptide binding]; other site 871963006167 GTP/Mg2+ binding site [chemical binding]; other site 871963006168 Switch I region; other site 871963006169 G2 box; other site 871963006170 G3 box; other site 871963006171 Switch II region; other site 871963006172 G4 box; other site 871963006173 G5 box; other site 871963006174 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 871963006175 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 871963006176 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 871963006177 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 871963006178 Cysteine-rich domain; Region: CCG; pfam02754 871963006179 Cysteine-rich domain; Region: CCG; pfam02754 871963006180 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 871963006181 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 871963006182 4Fe-4S binding domain; Region: Fer4_6; pfam12837 871963006183 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 871963006184 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 871963006185 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 871963006186 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 871963006187 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 871963006188 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 871963006189 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 871963006190 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 871963006191 Predicted membrane protein [Function unknown]; Region: COG2323 871963006192 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 871963006193 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 871963006194 Peptidase family M48; Region: Peptidase_M48; cl12018 871963006195 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 871963006196 Domain of unknown function DUF21; Region: DUF21; pfam01595 871963006197 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 871963006198 Transporter associated domain; Region: CorC_HlyC; smart01091 871963006199 plasmid segregation protein ParM; Provisional; Region: PRK13917 871963006200 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 871963006201 Mg binding site [ion binding]; other site 871963006202 nucleotide binding site [chemical binding]; other site 871963006203 putative protofilament interface [polypeptide binding]; other site 871963006204 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 871963006205 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 871963006206 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 871963006207 Spore germination protein; Region: Spore_permease; cl17796 871963006208 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 871963006209 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 871963006210 Walker A motif; other site 871963006211 ATP binding site [chemical binding]; other site 871963006212 Walker B motif; other site 871963006213 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 871963006214 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 871963006215 putative dimer interface [polypeptide binding]; other site 871963006216 active site pocket [active] 871963006217 putative cataytic base [active] 871963006218 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 871963006219 homotrimer interface [polypeptide binding]; other site 871963006220 Walker A motif; other site 871963006221 GTP binding site [chemical binding]; other site 871963006222 Walker B motif; other site 871963006223 cobalamin synthase; Reviewed; Region: cobS; PRK00235 871963006224 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 871963006225 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 871963006226 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963006227 homodimer interface [polypeptide binding]; other site 871963006228 catalytic residue [active] 871963006229 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 871963006230 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 871963006231 Catalytic site [active] 871963006232 GAF domain; Region: GAF; cl17456 871963006233 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963006234 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963006235 metal binding site [ion binding]; metal-binding site 871963006236 active site 871963006237 I-site; other site 871963006238 glycerate kinase; Region: TIGR00045 871963006239 yybP-ykoY leader 871963006240 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 871963006241 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 871963006242 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 871963006243 catalytic loop [active] 871963006244 iron binding site [ion binding]; other site 871963006245 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 871963006246 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 871963006247 putative active site [active] 871963006248 putative NTP binding site [chemical binding]; other site 871963006249 putative nucleic acid binding site [nucleotide binding]; other site 871963006250 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 871963006251 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871963006252 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 871963006253 ligand binding site [chemical binding]; other site 871963006254 flexible hinge region; other site 871963006255 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 871963006256 putative switch regulator; other site 871963006257 non-specific DNA interactions [nucleotide binding]; other site 871963006258 DNA binding site [nucleotide binding] 871963006259 sequence specific DNA binding site [nucleotide binding]; other site 871963006260 putative cAMP binding site [chemical binding]; other site 871963006261 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963006262 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 871963006263 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 871963006264 catalytic residues [active] 871963006265 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 871963006266 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963006267 Zn2+ binding site [ion binding]; other site 871963006268 Mg2+ binding site [ion binding]; other site 871963006269 hypothetical protein; Provisional; Region: PRK04194 871963006270 FOG: CBS domain [General function prediction only]; Region: COG0517 871963006271 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_30; cd04643 871963006272 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 871963006273 classical (c) SDRs; Region: SDR_c; cd05233 871963006274 NAD(P) binding site [chemical binding]; other site 871963006275 active site 871963006276 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 871963006277 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 871963006278 substrate binding pocket [chemical binding]; other site 871963006279 chain length determination region; other site 871963006280 substrate-Mg2+ binding site; other site 871963006281 catalytic residues [active] 871963006282 aspartate-rich region 1; other site 871963006283 active site lid residues [active] 871963006284 aspartate-rich region 2; other site 871963006285 Protein of unknown function (DUF2600); Region: DUF2600; pfam10776 871963006286 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 871963006287 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 871963006288 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 871963006289 active site 871963006290 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 871963006291 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 871963006292 inhibitor-cofactor binding pocket; inhibition site 871963006293 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963006294 catalytic residue [active] 871963006295 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 871963006296 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 871963006297 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 871963006298 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 871963006299 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 871963006300 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 871963006301 FeS/SAM binding site; other site 871963006302 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 871963006303 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 871963006304 dimer interface [polypeptide binding]; other site 871963006305 active site 871963006306 Schiff base residues; other site 871963006307 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 871963006308 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 871963006309 FeS/SAM binding site; other site 871963006310 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 871963006311 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 871963006312 active site 871963006313 SAM binding site [chemical binding]; other site 871963006314 homodimer interface [polypeptide binding]; other site 871963006315 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 871963006316 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 871963006317 active site 871963006318 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 871963006319 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 871963006320 domain interfaces; other site 871963006321 active site 871963006322 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 871963006323 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 871963006324 tRNA; other site 871963006325 putative tRNA binding site [nucleotide binding]; other site 871963006326 putative NADP binding site [chemical binding]; other site 871963006327 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 871963006328 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 871963006329 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 871963006330 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 871963006331 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 871963006332 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 871963006333 ResB-like family; Region: ResB; pfam05140 871963006334 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 871963006335 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 871963006336 4Fe-4S binding domain; Region: Fer4; cl02805 871963006337 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 871963006338 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 871963006339 substrate binding pocket [chemical binding]; other site 871963006340 chain length determination region; other site 871963006341 substrate-Mg2+ binding site; other site 871963006342 catalytic residues [active] 871963006343 aspartate-rich region 1; other site 871963006344 active site lid residues [active] 871963006345 aspartate-rich region 2; other site 871963006346 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 871963006347 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 871963006348 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 871963006349 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 871963006350 hypothetical protein; Provisional; Region: PRK04435 871963006351 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 871963006352 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 871963006353 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 871963006354 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 871963006355 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 871963006356 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 871963006357 membrane protein; Provisional; Region: PRK14395 871963006358 GTP-binding protein Der; Reviewed; Region: PRK00093 871963006359 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 871963006360 G1 box; other site 871963006361 GTP/Mg2+ binding site [chemical binding]; other site 871963006362 Switch I region; other site 871963006363 G2 box; other site 871963006364 Switch II region; other site 871963006365 G3 box; other site 871963006366 G4 box; other site 871963006367 G5 box; other site 871963006368 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 871963006369 G1 box; other site 871963006370 GTP/Mg2+ binding site [chemical binding]; other site 871963006371 Switch I region; other site 871963006372 G2 box; other site 871963006373 G3 box; other site 871963006374 Switch II region; other site 871963006375 G4 box; other site 871963006376 G5 box; other site 871963006377 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 871963006378 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 871963006379 Protein of unknown function (DUF512); Region: DUF512; pfam04459 871963006380 cell division protein FtsW; Region: ftsW; TIGR02614 871963006381 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 871963006382 LytB protein; Region: LYTB; cl00507 871963006383 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 871963006384 RNA binding site [nucleotide binding]; other site 871963006385 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 871963006386 RNA binding site [nucleotide binding]; other site 871963006387 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 871963006388 RNA binding site [nucleotide binding]; other site 871963006389 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 871963006390 RNA binding site [nucleotide binding]; other site 871963006391 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 871963006392 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 871963006393 putative acyl-acceptor binding pocket; other site 871963006394 cytidylate kinase; Provisional; Region: cmk; PRK00023 871963006395 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 871963006396 CMP-binding site; other site 871963006397 The sites determining sugar specificity; other site 871963006398 CAAX protease self-immunity; Region: Abi; pfam02517 871963006399 glycosylphosphatidylinositol-specific phospholipase C; Provisional; Region: PTZ00268 871963006400 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 871963006401 L-lactate permease; Region: Lactate_perm; cl00701 871963006402 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 871963006403 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 871963006404 hinge; other site 871963006405 active site 871963006406 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 871963006407 prephenate dehydrogenase; Validated; Region: PRK08507 871963006408 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 871963006409 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 871963006410 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 871963006411 homotrimer interaction site [polypeptide binding]; other site 871963006412 active site 871963006413 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 871963006414 hexamer interface [polypeptide binding]; other site 871963006415 RNA binding site [nucleotide binding]; other site 871963006416 Histidine-zinc binding site [chemical binding]; other site 871963006417 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 871963006418 GEMM cis-regulatory element 871963006419 HI0933-like protein; Region: HI0933_like; pfam03486 871963006420 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871963006421 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 871963006422 Double zinc ribbon; Region: DZR; pfam12773 871963006423 Predicted membrane protein (DUF2085); Region: DUF2085; pfam09858 871963006424 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963006425 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 871963006426 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 871963006427 Transcriptional regulators [Transcription]; Region: FadR; COG2186 871963006428 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963006429 DNA-binding site [nucleotide binding]; DNA binding site 871963006430 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 871963006431 Transcriptional regulators [Transcription]; Region: FadR; COG2186 871963006432 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963006433 DNA-binding site [nucleotide binding]; DNA binding site 871963006434 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 871963006435 L-lactate permease; Region: Lactate_perm; cl00701 871963006436 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 871963006437 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963006438 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 871963006439 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 871963006440 RNA binding surface [nucleotide binding]; other site 871963006441 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 871963006442 active site 871963006443 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 871963006444 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 871963006445 active site 871963006446 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 871963006447 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 871963006448 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 871963006449 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 871963006450 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 871963006451 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 871963006452 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 871963006453 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 871963006454 active site 871963006455 HIGH motif; other site 871963006456 dimer interface [polypeptide binding]; other site 871963006457 KMSKS motif; other site 871963006458 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 871963006459 Peptidase family M50; Region: Peptidase_M50; pfam02163 871963006460 active site 871963006461 putative substrate binding region [chemical binding]; other site 871963006462 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 871963006463 DHH family; Region: DHH; pfam01368 871963006464 DHHA1 domain; Region: DHHA1; pfam02272 871963006465 FOG: CBS domain [General function prediction only]; Region: COG0517 871963006466 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 871963006467 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 871963006468 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 871963006469 active site 871963006470 NTP binding site [chemical binding]; other site 871963006471 metal binding triad [ion binding]; metal-binding site 871963006472 Transcriptional regulator [Transcription]; Region: LytR; COG1316 871963006473 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 871963006474 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 871963006475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 871963006476 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 871963006477 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 871963006478 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 871963006479 stage V sporulation protein AD; Validated; Region: PRK08304 871963006480 stage V sporulation protein AD; Provisional; Region: PRK12404 871963006481 SpoVA protein; Region: SpoVA; cl04298 871963006482 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 871963006483 anti sigma factor interaction site; other site 871963006484 regulatory phosphorylation site [posttranslational modification]; other site 871963006485 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 871963006486 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963006487 ATP binding site [chemical binding]; other site 871963006488 Mg2+ binding site [ion binding]; other site 871963006489 G-X-G motif; other site 871963006490 sporulation sigma factor SigF; Validated; Region: PRK05572 871963006491 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963006492 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 871963006493 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 871963006494 DNA binding residues [nucleotide binding] 871963006495 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 871963006496 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 871963006497 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 871963006498 CoA binding domain; Region: CoA_binding_2; pfam13380 871963006499 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 871963006500 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 871963006501 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 871963006502 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 871963006503 purine nucleoside phosphorylase; Provisional; Region: PRK08202 871963006504 phosphopentomutase; Provisional; Region: PRK05362 871963006505 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 871963006506 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 871963006507 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 871963006508 active site 871963006509 Int/Topo IB signature motif; other site 871963006510 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 871963006511 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 871963006512 DNA binding site [nucleotide binding] 871963006513 sequence specific DNA binding site [nucleotide binding]; other site 871963006514 putative cAMP binding site [chemical binding]; other site 871963006515 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 871963006516 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 871963006517 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 871963006518 G1 box; other site 871963006519 GTP/Mg2+ binding site [chemical binding]; other site 871963006520 Switch I region; other site 871963006521 G2 box; other site 871963006522 G3 box; other site 871963006523 Switch II region; other site 871963006524 G4 box; other site 871963006525 G5 box; other site 871963006526 Nucleoside recognition; Region: Gate; pfam07670 871963006527 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 871963006528 Nucleoside recognition; Region: Gate; pfam07670 871963006529 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 871963006530 FeoA domain; Region: FeoA; pfam04023 871963006531 Integral membrane protein DUF95; Region: DUF95; cl00572 871963006532 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 871963006533 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 871963006534 dimer interface [polypeptide binding]; other site 871963006535 ADP-ribose binding site [chemical binding]; other site 871963006536 active site 871963006537 nudix motif; other site 871963006538 metal binding site [ion binding]; metal-binding site 871963006539 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 871963006540 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 871963006541 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 871963006542 ABC transporter; Region: ABC_tran_2; pfam12848 871963006543 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 871963006544 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 871963006545 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963006546 active site 871963006547 phosphorylation site [posttranslational modification] 871963006548 intermolecular recognition site; other site 871963006549 dimerization interface [polypeptide binding]; other site 871963006550 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 871963006551 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 871963006552 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 871963006553 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 871963006554 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 871963006555 Walker A/P-loop; other site 871963006556 ATP binding site [chemical binding]; other site 871963006557 Q-loop/lid; other site 871963006558 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 871963006559 ABC transporter signature motif; other site 871963006560 Walker B; other site 871963006561 D-loop; other site 871963006562 H-loop/switch region; other site 871963006563 Arginine repressor [Transcription]; Region: ArgR; COG1438 871963006564 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 871963006565 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 871963006566 Methyltransferase domain; Region: Methyltransf_31; pfam13847 871963006567 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 871963006568 S-adenosylmethionine binding site [chemical binding]; other site 871963006569 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 871963006570 ATP-NAD kinase; Region: NAD_kinase; pfam01513 871963006571 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 871963006572 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 871963006573 RNA binding surface [nucleotide binding]; other site 871963006574 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 871963006575 S-adenosylmethionine binding site [chemical binding]; other site 871963006576 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 871963006577 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 871963006578 TPP-binding site; other site 871963006579 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 871963006580 PYR/PP interface [polypeptide binding]; other site 871963006581 dimer interface [polypeptide binding]; other site 871963006582 TPP binding site [chemical binding]; other site 871963006583 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 871963006584 Divergent PAP2 family; Region: DUF212; pfam02681 871963006585 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 871963006586 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 871963006587 substrate binding pocket [chemical binding]; other site 871963006588 chain length determination region; other site 871963006589 substrate-Mg2+ binding site; other site 871963006590 catalytic residues [active] 871963006591 aspartate-rich region 1; other site 871963006592 active site lid residues [active] 871963006593 aspartate-rich region 2; other site 871963006594 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 871963006595 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 871963006596 generic binding surface II; other site 871963006597 generic binding surface I; other site 871963006598 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 871963006599 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 871963006600 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 871963006601 Cl binding site [ion binding]; other site 871963006602 oligomer interface [polypeptide binding]; other site 871963006603 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 871963006604 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 871963006605 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 871963006606 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 871963006607 homodimer interface [polypeptide binding]; other site 871963006608 NADP binding site [chemical binding]; other site 871963006609 substrate binding site [chemical binding]; other site 871963006610 putative oxidoreductase; Provisional; Region: PRK12831 871963006611 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 871963006612 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871963006613 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 871963006614 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 871963006615 FAD binding pocket [chemical binding]; other site 871963006616 FAD binding motif [chemical binding]; other site 871963006617 phosphate binding motif [ion binding]; other site 871963006618 beta-alpha-beta structure motif; other site 871963006619 NAD binding pocket [chemical binding]; other site 871963006620 Iron coordination center [ion binding]; other site 871963006621 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 871963006622 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: QRI7; COG0533 871963006623 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 871963006624 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 871963006625 putative RNA binding site [nucleotide binding]; other site 871963006626 Asp23 family; Region: Asp23; pfam03780 871963006627 Asp23 family; Region: Asp23; pfam03780 871963006628 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 871963006629 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 871963006630 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 871963006631 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 871963006632 pyruvate carboxylase subunit B; Validated; Region: PRK09282 871963006633 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 871963006634 active site 871963006635 catalytic residues [active] 871963006636 metal binding site [ion binding]; metal-binding site 871963006637 homodimer binding site [polypeptide binding]; other site 871963006638 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 871963006639 carboxyltransferase (CT) interaction site; other site 871963006640 biotinylation site [posttranslational modification]; other site 871963006641 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 871963006642 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 871963006643 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 871963006644 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 871963006645 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 871963006646 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 871963006647 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 871963006648 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 871963006649 Walker A motif; other site 871963006650 ATP binding site [chemical binding]; other site 871963006651 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 871963006652 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 871963006653 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 871963006654 elongation factor P; Validated; Region: PRK00529 871963006655 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 871963006656 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 871963006657 RNA binding site [nucleotide binding]; other site 871963006658 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 871963006659 RNA binding site [nucleotide binding]; other site 871963006660 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 871963006661 Dehydroquinase class II; Region: DHquinase_II; pfam01220 871963006662 trimer interface [polypeptide binding]; other site 871963006663 active site 871963006664 dimer interface [polypeptide binding]; other site 871963006665 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963006666 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 871963006667 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 871963006668 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 871963006669 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 871963006670 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 871963006671 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 871963006672 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 871963006673 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 871963006674 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 871963006675 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 871963006676 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 871963006677 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 871963006678 Walker A motif; other site 871963006679 ATP binding site [chemical binding]; other site 871963006680 Walker B motif; other site 871963006681 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 871963006682 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 871963006683 active site 871963006684 dimer interface [polypeptide binding]; other site 871963006685 metal binding site [ion binding]; metal-binding site 871963006686 shikimate kinase; Provisional; Region: PRK13947 871963006687 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 871963006688 ADP binding site [chemical binding]; other site 871963006689 magnesium binding site [ion binding]; other site 871963006690 putative shikimate binding site; other site 871963006691 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 871963006692 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 871963006693 Tetramer interface [polypeptide binding]; other site 871963006694 active site 871963006695 FMN-binding site [chemical binding]; other site 871963006696 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 871963006697 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 871963006698 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 871963006699 shikimate binding site; other site 871963006700 NAD(P) binding site [chemical binding]; other site 871963006701 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 871963006702 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 871963006703 active site 871963006704 motif I; other site 871963006705 motif II; other site 871963006706 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 871963006707 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 871963006708 AzlC protein; Region: AzlC; cl00570 871963006709 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 871963006710 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 871963006711 putative DNA binding site [nucleotide binding]; other site 871963006712 putative Zn2+ binding site [ion binding]; other site 871963006713 AsnC family; Region: AsnC_trans_reg; pfam01037 871963006714 sporulation sigma factor SigK; Reviewed; Region: PRK05803 871963006715 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963006716 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 871963006717 DNA binding residues [nucleotide binding] 871963006718 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 871963006719 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 871963006720 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 871963006721 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 871963006722 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 871963006723 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 871963006724 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 871963006725 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 871963006726 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 871963006727 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 871963006728 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 871963006729 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 871963006730 Walker A motif; other site 871963006731 ATP binding site [chemical binding]; other site 871963006732 Walker B motif; other site 871963006733 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 871963006734 Peptidase family U32; Region: Peptidase_U32; pfam01136 871963006735 YceG-like family; Region: YceG; pfam02618 871963006736 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 871963006737 dimerization interface [polypeptide binding]; other site 871963006738 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 871963006739 VanW like protein; Region: VanW; pfam04294 871963006740 G5 domain; Region: G5; pfam07501 871963006741 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 871963006742 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 871963006743 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 871963006744 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 871963006745 active site 871963006746 catalytic tetrad [active] 871963006747 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 871963006748 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963006749 hypothetical protein; Provisional; Region: PRK05473 871963006750 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 871963006751 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 871963006752 motif 1; other site 871963006753 active site 871963006754 motif 2; other site 871963006755 Acetokinase family; Region: Acetate_kinase; cl17229 871963006756 motif 3; other site 871963006757 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 871963006758 DHHA1 domain; Region: DHHA1; pfam02272 871963006759 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 871963006760 Domain of unknown function DUF20; Region: UPF0118; pfam01594 871963006761 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 871963006762 PRC-barrel domain; Region: PRC; pfam05239 871963006763 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 871963006764 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 871963006765 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 871963006766 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 871963006767 trimerization site [polypeptide binding]; other site 871963006768 active site 871963006769 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 871963006770 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 871963006771 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871963006772 catalytic residue [active] 871963006773 Transcriptional regulator; Region: Rrf2; cl17282 871963006774 Rrf2 family protein; Region: rrf2_super; TIGR00738 871963006775 recombination factor protein RarA; Reviewed; Region: PRK13342 871963006776 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 871963006777 Walker A motif; other site 871963006778 ATP binding site [chemical binding]; other site 871963006779 Walker B motif; other site 871963006780 arginine finger; other site 871963006781 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 871963006782 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 871963006783 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 871963006784 catalytic residues [active] 871963006785 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 871963006786 putative homodimer interface [polypeptide binding]; other site 871963006787 putative homotetramer interface [polypeptide binding]; other site 871963006788 putative allosteric switch controlling residues; other site 871963006789 putative metal binding site [ion binding]; other site 871963006790 putative homodimer-homodimer interface [polypeptide binding]; other site 871963006791 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 871963006792 dimer interface [polypeptide binding]; other site 871963006793 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 871963006794 anticodon binding site; other site 871963006795 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 871963006796 homodimer interface [polypeptide binding]; other site 871963006797 motif 1; other site 871963006798 active site 871963006799 motif 2; other site 871963006800 GAD domain; Region: GAD; pfam02938 871963006801 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 871963006802 motif 3; other site 871963006803 histidyl-tRNA synthetase; Region: hisS; TIGR00442 871963006804 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 871963006805 dimer interface [polypeptide binding]; other site 871963006806 motif 1; other site 871963006807 active site 871963006808 motif 2; other site 871963006809 motif 3; other site 871963006810 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 871963006811 anticodon binding site; other site 871963006812 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 871963006813 Walker A/P-loop; other site 871963006814 ATP binding site [chemical binding]; other site 871963006815 Q-loop/lid; other site 871963006816 ABC transporter signature motif; other site 871963006817 Walker B; other site 871963006818 D-loop; other site 871963006819 H-loop/switch region; other site 871963006820 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 871963006821 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 871963006822 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963006823 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 871963006824 DNA binding residues [nucleotide binding] 871963006825 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 871963006826 non-specific DNA binding site [nucleotide binding]; other site 871963006827 salt bridge; other site 871963006828 sequence-specific DNA binding site [nucleotide binding]; other site 871963006829 coproporphyrinogen dehydrogenase HemZ; Region: rSAM_HemZ; TIGR03994 871963006830 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 871963006831 FeS/SAM binding site; other site 871963006832 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 871963006833 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 871963006834 putative active site [active] 871963006835 dimerization interface [polypeptide binding]; other site 871963006836 putative tRNAtyr binding site [nucleotide binding]; other site 871963006837 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 871963006838 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963006839 Zn2+ binding site [ion binding]; other site 871963006840 Mg2+ binding site [ion binding]; other site 871963006841 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 871963006842 synthetase active site [active] 871963006843 NTP binding site [chemical binding]; other site 871963006844 metal binding site [ion binding]; metal-binding site 871963006845 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 871963006846 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 871963006847 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871963006848 active site 871963006849 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 871963006850 DHH family; Region: DHH; pfam01368 871963006851 DHHA1 domain; Region: DHHA1; pfam02272 871963006852 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 871963006853 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 871963006854 putative active site [active] 871963006855 putative metal binding site [ion binding]; other site 871963006856 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 871963006857 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 871963006858 putative valine binding site [chemical binding]; other site 871963006859 dimer interface [polypeptide binding]; other site 871963006860 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 871963006861 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 871963006862 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 871963006863 PYR/PP interface [polypeptide binding]; other site 871963006864 dimer interface [polypeptide binding]; other site 871963006865 TPP binding site [chemical binding]; other site 871963006866 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 871963006867 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 871963006868 TPP-binding site [chemical binding]; other site 871963006869 dimer interface [polypeptide binding]; other site 871963006870 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 871963006871 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 871963006872 Protein export membrane protein; Region: SecD_SecF; pfam02355 871963006873 EcsC protein family; Region: EcsC; pfam12787 871963006874 Preprotein translocase subunit; Region: YajC; pfam02699 871963006875 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 871963006876 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 871963006877 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 871963006878 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 871963006879 Stage II sporulation protein; Region: SpoIID; pfam08486 871963006880 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 871963006881 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 871963006882 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 871963006883 Walker A motif; other site 871963006884 ATP binding site [chemical binding]; other site 871963006885 Walker B motif; other site 871963006886 arginine finger; other site 871963006887 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 871963006888 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 871963006889 RuvA N terminal domain; Region: RuvA_N; pfam01330 871963006890 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 871963006891 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 871963006892 active site 871963006893 putative DNA-binding cleft [nucleotide binding]; other site 871963006894 dimer interface [polypeptide binding]; other site 871963006895 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 871963006896 Radical SAM superfamily; Region: Radical_SAM; pfam04055 871963006897 hypothetical protein; Validated; Region: PRK00110 871963006898 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 871963006899 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 871963006900 dimerization interface [polypeptide binding]; other site 871963006901 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 871963006902 ATP binding site [chemical binding]; other site 871963006903 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 871963006904 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 871963006905 HupF/HypC family; Region: HupF_HypC; pfam01455 871963006906 Acylphosphatase; Region: Acylphosphatase; pfam00708 871963006907 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 871963006908 HypF finger; Region: zf-HYPF; pfam07503 871963006909 HypF finger; Region: zf-HYPF; pfam07503 871963006910 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 871963006911 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 871963006912 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 871963006913 catalytic residues [active] 871963006914 chaperone protein DnaJ; Provisional; Region: PRK14299 871963006915 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 871963006916 HSP70 interaction site [polypeptide binding]; other site 871963006917 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 871963006918 substrate binding site [polypeptide binding]; other site 871963006919 dimer interface [polypeptide binding]; other site 871963006920 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 871963006921 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 871963006922 substrate binding pocket [chemical binding]; other site 871963006923 dimer interface [polypeptide binding]; other site 871963006924 inhibitor binding site; inhibition site 871963006925 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 871963006926 DctM-like transporters; Region: DctM; pfam06808 871963006927 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 871963006928 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 871963006929 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 871963006930 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 871963006931 PAS domain; Region: PAS_9; pfam13426 871963006932 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 871963006933 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 871963006934 Walker A motif; other site 871963006935 ATP binding site [chemical binding]; other site 871963006936 Walker B motif; other site 871963006937 arginine finger; other site 871963006938 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 871963006939 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 871963006940 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 871963006941 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 871963006942 B12 binding site [chemical binding]; other site 871963006943 cobalt ligand [ion binding]; other site 871963006944 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 871963006945 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 871963006946 substrate binding pocket [chemical binding]; other site 871963006947 dimer interface [polypeptide binding]; other site 871963006948 inhibitor binding site; inhibition site 871963006949 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 871963006950 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 871963006951 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 871963006952 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 871963006953 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 871963006954 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 871963006955 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 871963006956 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 871963006957 dihydrodipicolinate synthase; Region: dapA; TIGR00674 871963006958 dimer interface [polypeptide binding]; other site 871963006959 active site 871963006960 catalytic residue [active] 871963006961 aspartate kinase I; Reviewed; Region: PRK08210 871963006962 AAK_AKi-DapG-BS: Amino Acid Kinase Superfamily (AAK), AKi-DapG; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional class enzyme found in Bacilli; Region: AAK_AKi-DapG-BS; cd04260 871963006963 putative catalytic residues [active] 871963006964 putative nucleotide binding site [chemical binding]; other site 871963006965 putative aspartate binding site [chemical binding]; other site 871963006966 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 871963006967 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 871963006968 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 871963006969 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 871963006970 dipicolinate synthase subunit B; Reviewed; Region: spoVFB; PRK08305 871963006971 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 871963006972 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 871963006973 dihydrodipicolinate reductase; Provisional; Region: PRK00048 871963006974 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 871963006975 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 871963006976 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 871963006977 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 871963006978 trimer interface [polypeptide binding]; other site 871963006979 active site 871963006980 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 871963006981 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 871963006982 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 871963006983 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 871963006984 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 871963006985 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 871963006986 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 871963006987 NodB motif; other site 871963006988 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 871963006989 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 871963006990 RNase E interface [polypeptide binding]; other site 871963006991 trimer interface [polypeptide binding]; other site 871963006992 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 871963006993 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 871963006994 RNase E interface [polypeptide binding]; other site 871963006995 trimer interface [polypeptide binding]; other site 871963006996 active site 871963006997 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 871963006998 putative nucleic acid binding region [nucleotide binding]; other site 871963006999 G-X-X-G motif; other site 871963007000 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 871963007001 RNA binding site [nucleotide binding]; other site 871963007002 domain interface; other site 871963007003 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 871963007004 16S/18S rRNA binding site [nucleotide binding]; other site 871963007005 S13e-L30e interaction site [polypeptide binding]; other site 871963007006 25S rRNA binding site [nucleotide binding]; other site 871963007007 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 871963007008 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 871963007009 active site 871963007010 Riboflavin kinase; Region: Flavokinase; pfam01687 871963007011 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 871963007012 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 871963007013 RNA binding site [nucleotide binding]; other site 871963007014 active site 871963007015 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 871963007016 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 871963007017 DHH family; Region: DHH; pfam01368 871963007018 DHHA1 domain; Region: DHHA1; pfam02272 871963007019 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 871963007020 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 871963007021 translation initiation factor IF-2; Validated; Region: infB; PRK05306 871963007022 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 871963007023 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 871963007024 G1 box; other site 871963007025 putative GEF interaction site [polypeptide binding]; other site 871963007026 GTP/Mg2+ binding site [chemical binding]; other site 871963007027 Switch I region; other site 871963007028 G2 box; other site 871963007029 G3 box; other site 871963007030 Switch II region; other site 871963007031 G4 box; other site 871963007032 G5 box; other site 871963007033 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 871963007034 Translation-initiation factor 2; Region: IF-2; pfam11987 871963007035 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 871963007036 Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]; Region: RPL8A; COG1358 871963007037 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 871963007038 putative RNA binding cleft [nucleotide binding]; other site 871963007039 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 871963007040 NusA N-terminal domain; Region: NusA_N; pfam08529 871963007041 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 871963007042 RNA binding site [nucleotide binding]; other site 871963007043 homodimer interface [polypeptide binding]; other site 871963007044 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 871963007045 G-X-X-G motif; other site 871963007046 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 871963007047 G-X-X-G motif; other site 871963007048 ribosome maturation protein RimP; Reviewed; Region: PRK00092 871963007049 Sm and related proteins; Region: Sm_like; cl00259 871963007050 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 871963007051 putative oligomer interface [polypeptide binding]; other site 871963007052 putative RNA binding site [nucleotide binding]; other site 871963007053 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 871963007054 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 871963007055 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 871963007056 FeS/SAM binding site; other site 871963007057 prolyl-tRNA synthetase; Provisional; Region: PRK09194 871963007058 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 871963007059 dimer interface [polypeptide binding]; other site 871963007060 motif 1; other site 871963007061 active site 871963007062 motif 2; other site 871963007063 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 871963007064 putative deacylase active site [active] 871963007065 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 871963007066 active site 871963007067 motif 3; other site 871963007068 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 871963007069 anticodon binding site; other site 871963007070 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 871963007071 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 871963007072 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 871963007073 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 871963007074 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 871963007075 active site 871963007076 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 871963007077 protein binding site [polypeptide binding]; other site 871963007078 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 871963007079 putative substrate binding region [chemical binding]; other site 871963007080 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 871963007081 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 871963007082 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 871963007083 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 871963007084 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 871963007085 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 871963007086 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 871963007087 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 871963007088 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 871963007089 catalytic residue [active] 871963007090 putative FPP diphosphate binding site; other site 871963007091 putative FPP binding hydrophobic cleft; other site 871963007092 dimer interface [polypeptide binding]; other site 871963007093 putative IPP diphosphate binding site; other site 871963007094 ribosome recycling factor; Reviewed; Region: frr; PRK00083 871963007095 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 871963007096 hinge region; other site 871963007097 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 871963007098 putative nucleotide binding site [chemical binding]; other site 871963007099 uridine monophosphate binding site [chemical binding]; other site 871963007100 homohexameric interface [polypeptide binding]; other site 871963007101 elongation factor Ts; Reviewed; Region: tsf; PRK12332 871963007102 UBA/TS-N domain; Region: UBA; pfam00627 871963007103 Elongation factor TS; Region: EF_TS; pfam00889 871963007104 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 871963007105 rRNA interaction site [nucleotide binding]; other site 871963007106 S8 interaction site; other site 871963007107 putative laminin-1 binding site; other site 871963007108 transcriptional repressor CodY; Validated; Region: PRK04158 871963007109 CodY GAF-like domain; Region: CodY; pfam06018 871963007110 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 871963007111 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 871963007112 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 871963007113 Walker A motif; other site 871963007114 ATP binding site [chemical binding]; other site 871963007115 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 871963007116 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 871963007117 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 871963007118 active site 871963007119 HslU subunit interaction site [polypeptide binding]; other site 871963007120 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 871963007121 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 871963007122 active site 871963007123 DNA binding site [nucleotide binding] 871963007124 Int/Topo IB signature motif; other site 871963007125 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 871963007126 Glucose inhibited division protein A; Region: GIDA; pfam01134 871963007127 DNA topoisomerase I; Validated; Region: PRK05582 871963007128 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 871963007129 active site 871963007130 interdomain interaction site; other site 871963007131 putative metal-binding site [ion binding]; other site 871963007132 nucleotide binding site [chemical binding]; other site 871963007133 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 871963007134 domain I; other site 871963007135 DNA binding groove [nucleotide binding] 871963007136 phosphate binding site [ion binding]; other site 871963007137 domain II; other site 871963007138 domain III; other site 871963007139 nucleotide binding site [chemical binding]; other site 871963007140 catalytic site [active] 871963007141 domain IV; other site 871963007142 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 871963007143 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 871963007144 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 871963007145 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 871963007146 DNA protecting protein DprA; Region: dprA; TIGR00732 871963007147 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 871963007148 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 871963007149 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 871963007150 AP (apurinic/apyrimidinic) site pocket; other site 871963007151 DNA interaction; other site 871963007152 Metal-binding active site; metal-binding site 871963007153 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 871963007154 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 871963007155 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 871963007156 putative dimer interface [polypeptide binding]; other site 871963007157 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 871963007158 NHLM bacteriocin system ABC transporter, ATP-binding protein; Region: NHLM_micro_ABC2; TIGR03797 871963007159 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 871963007160 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963007161 Walker A/P-loop; other site 871963007162 ATP binding site [chemical binding]; other site 871963007163 Q-loop/lid; other site 871963007164 ABC transporter signature motif; other site 871963007165 Walker B; other site 871963007166 D-loop; other site 871963007167 H-loop/switch region; other site 871963007168 NHLM bacteriocin system ABC transporter, peptidase/ATP-binding protein; Region: NHLM_micro_ABC1; TIGR03796 871963007169 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_C39D; cd02420 871963007170 putative active site [active] 871963007171 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 871963007172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963007173 Walker A/P-loop; other site 871963007174 ATP binding site [chemical binding]; other site 871963007175 Q-loop/lid; other site 871963007176 ABC transporter signature motif; other site 871963007177 Walker B; other site 871963007178 D-loop; other site 871963007179 H-loop/switch region; other site 871963007180 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 871963007181 HlyD family secretion protein; Region: HlyD_3; pfam13437 871963007182 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 871963007183 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 871963007184 nif11-like peptide radical SAM maturase; Region: rSAM_nif11; TIGR04064 871963007185 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 871963007186 FeS/SAM binding site; other site 871963007187 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 871963007188 nif11-like leader peptide domain; Region: ocin_TIGR03798 871963007189 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 871963007190 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963007191 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 871963007192 DNA binding residues [nucleotide binding] 871963007193 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 871963007194 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 871963007195 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 871963007196 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 871963007197 CDGSH-type zinc finger. Function unknown; Region: ZnF_CDGSH; smart00704 871963007198 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 871963007199 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 871963007200 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 871963007201 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 871963007202 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 871963007203 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 871963007204 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 871963007205 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 871963007206 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871963007207 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 871963007208 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 871963007209 dimerization interface [polypeptide binding]; other site 871963007210 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871963007211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 871963007212 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 871963007213 dimerization interface [polypeptide binding]; other site 871963007214 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 871963007215 dimerization interface [polypeptide binding]; other site 871963007216 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 871963007217 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 871963007218 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963007219 dimer interface [polypeptide binding]; other site 871963007220 phosphorylation site [posttranslational modification] 871963007221 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963007222 ATP binding site [chemical binding]; other site 871963007223 Mg2+ binding site [ion binding]; other site 871963007224 G-X-G motif; other site 871963007225 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963007226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963007227 active site 871963007228 phosphorylation site [posttranslational modification] 871963007229 intermolecular recognition site; other site 871963007230 dimerization interface [polypeptide binding]; other site 871963007231 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 871963007232 DNA binding site [nucleotide binding] 871963007233 hypothetical protein; Reviewed; Region: PRK12497 871963007234 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 871963007235 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 871963007236 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 871963007237 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 871963007238 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 871963007239 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 871963007240 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 871963007241 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 871963007242 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 871963007243 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 871963007244 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 871963007245 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 871963007246 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 871963007247 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 871963007248 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 871963007249 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 871963007250 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 871963007251 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 871963007252 NADH dehydrogenase subunit B; Validated; Region: PRK06411 871963007253 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 871963007254 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 871963007255 RNA/DNA hybrid binding site [nucleotide binding]; other site 871963007256 active site 871963007257 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 871963007258 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 871963007259 GTP/Mg2+ binding site [chemical binding]; other site 871963007260 G4 box; other site 871963007261 G5 box; other site 871963007262 G1 box; other site 871963007263 Switch I region; other site 871963007264 G2 box; other site 871963007265 G3 box; other site 871963007266 Switch II region; other site 871963007267 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 871963007268 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 871963007269 Catalytic site [active] 871963007270 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 871963007271 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 871963007272 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 871963007273 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 871963007274 RimM N-terminal domain; Region: RimM; pfam01782 871963007275 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 871963007276 hypothetical protein; Provisional; Region: PRK00468 871963007277 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 871963007278 signal recognition particle protein; Provisional; Region: PRK10867 871963007279 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 871963007280 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 871963007281 P loop; other site 871963007282 GTP binding site [chemical binding]; other site 871963007283 Signal peptide binding domain; Region: SRP_SPB; pfam02978 871963007284 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 871963007285 putative DNA-binding protein; Validated; Region: PRK00118 871963007286 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 871963007287 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 871963007288 active site 871963007289 putative substrate binding pocket [chemical binding]; other site 871963007290 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 871963007291 intersubunit interface [polypeptide binding]; other site 871963007292 active site 871963007293 Zn2+ binding site [ion binding]; other site 871963007294 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 871963007295 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 871963007296 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 871963007297 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 871963007298 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 871963007299 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 871963007300 GTP binding site [chemical binding]; other site 871963007301 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 871963007302 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 871963007303 G1 box; other site 871963007304 GTP/Mg2+ binding site [chemical binding]; other site 871963007305 Switch I region; other site 871963007306 G2 box; other site 871963007307 G3 box; other site 871963007308 Switch II region; other site 871963007309 G4 box; other site 871963007310 G5 box; other site 871963007311 Nucleoside recognition; Region: Gate; pfam07670 871963007312 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 871963007313 Nucleoside recognition; Region: Gate; pfam07670 871963007314 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 871963007315 manganese transport transcriptional regulator; Provisional; Region: PRK03902 871963007316 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 871963007317 putative DNA binding site [nucleotide binding]; other site 871963007318 putative Zn2+ binding site [ion binding]; other site 871963007319 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 871963007320 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 871963007321 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 871963007322 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 871963007323 Walker A motif; other site 871963007324 ATP binding site [chemical binding]; other site 871963007325 Walker B motif; other site 871963007326 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 871963007327 Integrase core domain; Region: rve; pfam00665 871963007328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 871963007329 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 871963007330 active site 871963007331 PemK-like protein; Region: PemK; cl00995 871963007332 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 871963007333 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871963007334 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 871963007335 ligand binding site [chemical binding]; other site 871963007336 flexible hinge region; other site 871963007337 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 871963007338 putative switch regulator; other site 871963007339 non-specific DNA interactions [nucleotide binding]; other site 871963007340 DNA binding site [nucleotide binding] 871963007341 sequence specific DNA binding site [nucleotide binding]; other site 871963007342 putative cAMP binding site [chemical binding]; other site 871963007343 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963007344 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 871963007345 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 871963007346 Walker A/P-loop; other site 871963007347 ATP binding site [chemical binding]; other site 871963007348 Q-loop/lid; other site 871963007349 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 871963007350 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 871963007351 ABC transporter signature motif; other site 871963007352 Walker B; other site 871963007353 D-loop; other site 871963007354 H-loop/switch region; other site 871963007355 ribonuclease III; Reviewed; Region: rnc; PRK00102 871963007356 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 871963007357 dimerization interface [polypeptide binding]; other site 871963007358 active site 871963007359 metal binding site [ion binding]; metal-binding site 871963007360 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 871963007361 dsRNA binding site [nucleotide binding]; other site 871963007362 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 871963007363 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 871963007364 dimer interface [polypeptide binding]; other site 871963007365 active site 871963007366 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 871963007367 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 871963007368 FMN binding site [chemical binding]; other site 871963007369 substrate binding site [chemical binding]; other site 871963007370 putative catalytic residue [active] 871963007371 acyl carrier protein; Provisional; Region: acpP; PRK00982 871963007372 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 871963007373 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 871963007374 NAD(P) binding site [chemical binding]; other site 871963007375 homotetramer interface [polypeptide binding]; other site 871963007376 homodimer interface [polypeptide binding]; other site 871963007377 active site 871963007378 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 871963007379 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 871963007380 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 871963007381 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 871963007382 FMN binding site [chemical binding]; other site 871963007383 substrate binding site [chemical binding]; other site 871963007384 putative catalytic residue [active] 871963007385 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 871963007386 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 871963007387 dimer interface [polypeptide binding]; other site 871963007388 active site 871963007389 CoA binding pocket [chemical binding]; other site 871963007390 putative phosphate acyltransferase; Provisional; Region: PRK05331 871963007391 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 871963007392 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 871963007393 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; cd03440 871963007394 active site 2 [active] 871963007395 active site 1 [active] 871963007396 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 871963007397 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 871963007398 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 871963007399 active site 871963007400 DNA binding site [nucleotide binding] 871963007401 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 871963007402 DNA binding site [nucleotide binding] 871963007403 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 871963007404 nucleotide binding site [chemical binding]; other site 871963007405 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 871963007406 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 871963007407 putative homodimer interface [polypeptide binding]; other site 871963007408 putative DNA binding site [nucleotide binding]; other site 871963007409 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 871963007410 metal-binding site [ion binding] 871963007411 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 871963007412 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 871963007413 Soluble P-type ATPase [General function prediction only]; Region: COG4087 871963007414 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 871963007415 Uncharacterized conserved protein [Function unknown]; Region: COG3379 871963007416 Uncharacterized conserved protein [Function unknown]; Region: COG3379 871963007417 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 871963007418 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963007419 dimer interface [polypeptide binding]; other site 871963007420 putative CheW interface [polypeptide binding]; other site 871963007421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 871963007422 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 871963007423 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 871963007424 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871963007425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 871963007426 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 871963007427 dimerization interface [polypeptide binding]; other site 871963007428 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 871963007429 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 871963007430 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 871963007431 DctM-like transporters; Region: DctM; pfam06808 871963007432 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 871963007433 catalytic residues [active] 871963007434 Uncharacterized conserved protein [Function unknown]; Region: COG3379 871963007435 Uncharacterized conserved protein [Function unknown]; Region: COG3379 871963007436 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871963007437 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 871963007438 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 871963007439 dimerization interface [polypeptide binding]; other site 871963007440 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 871963007441 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 871963007442 Walker A/P-loop; other site 871963007443 ATP binding site [chemical binding]; other site 871963007444 Q-loop/lid; other site 871963007445 ABC transporter signature motif; other site 871963007446 Walker B; other site 871963007447 D-loop; other site 871963007448 H-loop/switch region; other site 871963007449 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 871963007450 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 871963007451 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 871963007452 Walker A/P-loop; other site 871963007453 ATP binding site [chemical binding]; other site 871963007454 Q-loop/lid; other site 871963007455 ABC transporter signature motif; other site 871963007456 Walker B; other site 871963007457 D-loop; other site 871963007458 H-loop/switch region; other site 871963007459 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 871963007460 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 871963007461 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 871963007462 dimer interface [polypeptide binding]; other site 871963007463 conserved gate region; other site 871963007464 putative PBP binding loops; other site 871963007465 ABC-ATPase subunit interface; other site 871963007466 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 871963007467 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 871963007468 dimer interface [polypeptide binding]; other site 871963007469 conserved gate region; other site 871963007470 putative PBP binding loops; other site 871963007471 ABC-ATPase subunit interface; other site 871963007472 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 871963007473 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_9; cd08496 871963007474 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 871963007475 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 871963007476 substrate binding pocket [chemical binding]; other site 871963007477 catalytic triad [active] 871963007478 putative acyltransferase; Provisional; Region: PRK05790 871963007479 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 871963007480 dimer interface [polypeptide binding]; other site 871963007481 active site 871963007482 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 871963007483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871963007484 NAD(P) binding site [chemical binding]; other site 871963007485 active site 871963007486 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 871963007487 putative active site [active] 871963007488 heme pocket [chemical binding]; other site 871963007489 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 871963007490 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 871963007491 Walker A motif; other site 871963007492 ATP binding site [chemical binding]; other site 871963007493 Walker B motif; other site 871963007494 arginine finger; other site 871963007495 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 871963007496 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 871963007497 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 871963007498 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 871963007499 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 871963007500 putative acyltransferase; Provisional; Region: PRK05790 871963007501 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 871963007502 dimer interface [polypeptide binding]; other site 871963007503 active site 871963007504 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 871963007505 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 871963007506 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 871963007507 propionate/acetate kinase; Provisional; Region: PRK12379 871963007508 hypothetical protein; Provisional; Region: PRK10279 871963007509 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 871963007510 active site 871963007511 nucleophile elbow; other site 871963007512 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 871963007513 Nucleoside recognition; Region: Gate; pfam07670 871963007514 major vault protein; Provisional; Region: PTZ00491 871963007515 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 871963007516 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 871963007517 S-adenosylmethionine binding site [chemical binding]; other site 871963007518 germination protease; Provisional; Region: PRK12362 871963007519 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 871963007520 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 871963007521 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 871963007522 generic binding surface II; other site 871963007523 ssDNA binding site; other site 871963007524 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 871963007525 ATP binding site [chemical binding]; other site 871963007526 putative Mg++ binding site [ion binding]; other site 871963007527 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 871963007528 nucleotide binding region [chemical binding]; other site 871963007529 ATP-binding site [chemical binding]; other site 871963007530 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 871963007531 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 871963007532 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 871963007533 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 871963007534 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 871963007535 putative L-serine binding site [chemical binding]; other site 871963007536 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 871963007537 DAK2 domain; Region: Dak2; pfam02734 871963007538 Asp23 family; Region: Asp23; pfam03780 871963007539 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 871963007540 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 871963007541 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 871963007542 dimerization interface [polypeptide binding]; other site 871963007543 domain crossover interface; other site 871963007544 redox-dependent activation switch; other site 871963007545 Thiamine pyrophosphokinase; Region: TPK; cd07995 871963007546 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 871963007547 active site 871963007548 dimerization interface [polypeptide binding]; other site 871963007549 thiamine binding site [chemical binding]; other site 871963007550 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 871963007551 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 871963007552 substrate binding site [chemical binding]; other site 871963007553 hexamer interface [polypeptide binding]; other site 871963007554 metal binding site [ion binding]; metal-binding site 871963007555 GTPase RsgA; Reviewed; Region: PRK00098 871963007556 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 871963007557 RNA binding site [nucleotide binding]; other site 871963007558 homodimer interface [polypeptide binding]; other site 871963007559 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 871963007560 GTPase/Zn-binding domain interface [polypeptide binding]; other site 871963007561 GTP/Mg2+ binding site [chemical binding]; other site 871963007562 G4 box; other site 871963007563 G5 box; other site 871963007564 G1 box; other site 871963007565 Switch I region; other site 871963007566 G2 box; other site 871963007567 G3 box; other site 871963007568 Switch II region; other site 871963007569 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 871963007570 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 871963007571 active site 871963007572 ATP binding site [chemical binding]; other site 871963007573 substrate binding site [chemical binding]; other site 871963007574 activation loop (A-loop); other site 871963007575 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 871963007576 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 871963007577 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 871963007578 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 871963007579 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 871963007580 Protein phosphatase 2C; Region: PP2C; pfam00481 871963007581 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 871963007582 active site 871963007583 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 871963007584 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 871963007585 phosphopeptide binding site; other site 871963007586 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 871963007587 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 871963007588 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 871963007589 phosphopeptide binding site; other site 871963007590 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 871963007591 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 871963007592 FeS/SAM binding site; other site 871963007593 16S rRNA methyltransferase B; Provisional; Region: PRK14902 871963007594 NusB family; Region: NusB; pfam01029 871963007595 putative RNA binding site [nucleotide binding]; other site 871963007596 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 871963007597 S-adenosylmethionine binding site [chemical binding]; other site 871963007598 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 871963007599 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 871963007600 putative active site [active] 871963007601 substrate binding site [chemical binding]; other site 871963007602 putative cosubstrate binding site; other site 871963007603 catalytic site [active] 871963007604 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 871963007605 substrate binding site [chemical binding]; other site 871963007606 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 871963007607 active site 871963007608 catalytic residues [active] 871963007609 metal binding site [ion binding]; metal-binding site 871963007610 primosome assembly protein PriA; Validated; Region: PRK05580 871963007611 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 871963007612 ATP binding site [chemical binding]; other site 871963007613 putative Mg++ binding site [ion binding]; other site 871963007614 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 871963007615 ATP-binding site [chemical binding]; other site 871963007616 hypothetical protein; Provisional; Region: PRK02877 871963007617 uracil transporter; Provisional; Region: PRK10720 871963007618 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 871963007619 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 871963007620 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 871963007621 S-adenosylmethionine synthetase; Validated; Region: PRK05250 871963007622 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 871963007623 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 871963007624 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 871963007625 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 871963007626 Flavoprotein; Region: Flavoprotein; pfam02441 871963007627 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 871963007628 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 871963007629 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 871963007630 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 871963007631 catalytic site [active] 871963007632 G-X2-G-X-G-K; other site 871963007633 hypothetical protein; Provisional; Region: PRK04323 871963007634 hypothetical protein; Provisional; Region: PRK11820 871963007635 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 871963007636 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 871963007637 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 871963007638 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 871963007639 Walker A/P-loop; other site 871963007640 ATP binding site [chemical binding]; other site 871963007641 Q-loop/lid; other site 871963007642 ABC transporter signature motif; other site 871963007643 Walker B; other site 871963007644 D-loop; other site 871963007645 H-loop/switch region; other site 871963007646 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 871963007647 ABC-2 type transporter; Region: ABC2_membrane; cl17235 871963007648 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 871963007649 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 871963007650 HlyD family secretion protein; Region: HlyD_3; pfam13437 871963007651 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 871963007652 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 871963007653 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 871963007654 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 871963007655 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 871963007656 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 871963007657 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 871963007658 Soluble P-type ATPase [General function prediction only]; Region: COG4087 871963007659 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 871963007660 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 871963007661 Domain of unknown function (DUF814); Region: DUF814; pfam05670 871963007662 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 871963007663 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 871963007664 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871963007665 active site 871963007666 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 871963007667 active site 871963007668 dimer interface [polypeptide binding]; other site 871963007669 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 871963007670 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 871963007671 heterodimer interface [polypeptide binding]; other site 871963007672 active site 871963007673 FMN binding site [chemical binding]; other site 871963007674 homodimer interface [polypeptide binding]; other site 871963007675 substrate binding site [chemical binding]; other site 871963007676 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 871963007677 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 871963007678 FAD binding pocket [chemical binding]; other site 871963007679 FAD binding motif [chemical binding]; other site 871963007680 phosphate binding motif [ion binding]; other site 871963007681 beta-alpha-beta structure motif; other site 871963007682 NAD binding pocket [chemical binding]; other site 871963007683 Iron coordination center [ion binding]; other site 871963007684 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 871963007685 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 871963007686 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 871963007687 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 871963007688 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 871963007689 ATP-grasp domain; Region: ATP-grasp_4; cl17255 871963007690 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 871963007691 IMP binding site; other site 871963007692 dimer interface [polypeptide binding]; other site 871963007693 interdomain contacts; other site 871963007694 partial ornithine binding site; other site 871963007695 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 871963007696 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 871963007697 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 871963007698 catalytic site [active] 871963007699 subunit interface [polypeptide binding]; other site 871963007700 dihydroorotase; Validated; Region: pyrC; PRK09357 871963007701 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 871963007702 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 871963007703 active site 871963007704 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 871963007705 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 871963007706 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 871963007707 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 871963007708 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871963007709 active site 871963007710 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 871963007711 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 871963007712 RNA binding surface [nucleotide binding]; other site 871963007713 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 871963007714 active site 871963007715 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 871963007716 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 871963007717 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 871963007718 UbiA prenyltransferase family; Region: UbiA; pfam01040 871963007719 flavoprotein, HI0933 family; Region: TIGR00275 871963007720 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 871963007721 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 871963007722 Propanediol utilisation protein PduL; Region: PduL; pfam06130 871963007723 Propanediol utilisation protein PduL; Region: PduL; pfam06130 871963007724 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 871963007725 tetramer interface [polypeptide binding]; other site 871963007726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963007727 catalytic residue [active] 871963007728 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 871963007729 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 871963007730 tetramer interface [polypeptide binding]; other site 871963007731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963007732 catalytic residue [active] 871963007733 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 871963007734 lipoyl attachment site [posttranslational modification]; other site 871963007735 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 871963007736 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 871963007737 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 871963007738 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 871963007739 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963007740 putative CheW interface [polypeptide binding]; other site 871963007741 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 871963007742 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 871963007743 HIGH motif; other site 871963007744 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 871963007745 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 871963007746 active site 871963007747 KMSKS motif; other site 871963007748 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 871963007749 tRNA binding surface [nucleotide binding]; other site 871963007750 anticodon binding site; other site 871963007751 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 871963007752 DivIVA protein; Region: DivIVA; pfam05103 871963007753 DivIVA domain; Region: DivI1A_domain; TIGR03544 871963007754 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 871963007755 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 871963007756 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 871963007757 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 871963007758 RNA binding surface [nucleotide binding]; other site 871963007759 YGGT family; Region: YGGT; pfam02325 871963007760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 871963007761 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 871963007762 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 871963007763 catalytic residue [active] 871963007764 HlyD family secretion protein; Region: HlyD_2; pfam12700 871963007765 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 871963007766 putative membrane fusion protein; Region: TIGR02828 871963007767 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 871963007768 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 871963007769 putative active site [active] 871963007770 heme pocket [chemical binding]; other site 871963007771 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963007772 dimer interface [polypeptide binding]; other site 871963007773 phosphorylation site [posttranslational modification] 871963007774 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963007775 ATP binding site [chemical binding]; other site 871963007776 Mg2+ binding site [ion binding]; other site 871963007777 G-X-G motif; other site 871963007778 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963007779 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963007780 active site 871963007781 phosphorylation site [posttranslational modification] 871963007782 intermolecular recognition site; other site 871963007783 dimerization interface [polypeptide binding]; other site 871963007784 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 871963007785 DNA binding site [nucleotide binding] 871963007786 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 871963007787 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 871963007788 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 871963007789 sporulation sigma factor SigG; Reviewed; Region: PRK08215 871963007790 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963007791 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 871963007792 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 871963007793 DNA binding residues [nucleotide binding] 871963007794 sporulation sigma factor SigE; Reviewed; Region: PRK08301 871963007795 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963007796 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 871963007797 DNA binding residues [nucleotide binding] 871963007798 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 871963007799 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 871963007800 cell division protein FtsZ; Validated; Region: PRK09330 871963007801 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 871963007802 nucleotide binding site [chemical binding]; other site 871963007803 SulA interaction site; other site 871963007804 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 871963007805 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 871963007806 Cell division protein FtsQ; Region: FtsQ; pfam03799 871963007807 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 871963007808 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 871963007809 hinge; other site 871963007810 active site 871963007811 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 871963007812 FAD binding domain; Region: FAD_binding_4; pfam01565 871963007813 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 871963007814 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 871963007815 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 871963007816 active site 871963007817 homodimer interface [polypeptide binding]; other site 871963007818 cell division protein FtsW; Region: ftsW; TIGR02614 871963007819 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 871963007820 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 871963007821 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 871963007822 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 871963007823 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 871963007824 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 871963007825 Mg++ binding site [ion binding]; other site 871963007826 putative catalytic motif [active] 871963007827 putative substrate binding site [chemical binding]; other site 871963007828 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 871963007829 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 871963007830 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 871963007831 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 871963007832 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 871963007833 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 871963007834 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 871963007835 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 871963007836 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 871963007837 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 871963007838 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 871963007839 PASTA domain of PBP2x-like proteins, first 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_1; cd06576 871963007840 Septum formation initiator; Region: DivIC; cl17659 871963007841 MraW methylase family; Region: Methyltransf_5; cl17771 871963007842 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 871963007843 cell division protein MraZ; Reviewed; Region: PRK00326 871963007844 MraZ protein; Region: MraZ; pfam02381 871963007845 MraZ protein; Region: MraZ; pfam02381 871963007846 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 871963007847 Sulfate transporter family; Region: Sulfate_transp; pfam00916 871963007848 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 871963007849 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871963007850 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 871963007851 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 871963007852 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 871963007853 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 871963007854 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 871963007855 metal binding site 2 [ion binding]; metal-binding site 871963007856 putative DNA binding helix; other site 871963007857 metal binding site 1 [ion binding]; metal-binding site 871963007858 dimer interface [polypeptide binding]; other site 871963007859 structural Zn2+ binding site [ion binding]; other site 871963007860 4Fe-4S binding domain; Region: Fer4; cl02805 871963007861 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 871963007862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 871963007863 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 871963007864 metal ion-dependent adhesion site (MIDAS); other site 871963007865 MoxR-like ATPases [General function prediction only]; Region: COG0714 871963007866 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 871963007867 Walker A motif; other site 871963007868 ATP binding site [chemical binding]; other site 871963007869 Walker B motif; other site 871963007870 arginine finger; other site 871963007871 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963007872 Zn2+ binding site [ion binding]; other site 871963007873 Mg2+ binding site [ion binding]; other site 871963007874 histidinol-phosphatase; Provisional; Region: PRK07328 871963007875 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 871963007876 active site 871963007877 dimer interface [polypeptide binding]; other site 871963007878 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 871963007879 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 871963007880 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 871963007881 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 871963007882 Coenzyme A binding pocket [chemical binding]; other site 871963007883 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 871963007884 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 871963007885 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 871963007886 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 871963007887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 871963007888 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 871963007889 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 871963007890 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 871963007891 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 871963007892 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 871963007893 Transposase; Region: HTH_Tnp_1; cl17663 871963007894 Domain of unknown function (DUF1900); Region: DUF1900; pfam08954 871963007895 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 871963007896 Walker A motif; other site 871963007897 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 871963007898 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 871963007899 dimer interface [polypeptide binding]; other site 871963007900 putative functional site; other site 871963007901 putative MPT binding site; other site 871963007902 Protein of unknown function (DUF342); Region: DUF342; pfam03961 871963007903 Transcriptional regulator [Transcription]; Region: LytR; COG1316 871963007904 Negative regulator of genetic competence (MecA); Region: MecA; pfam05389 871963007905 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 871963007906 Uncharacterized conserved protein [Function unknown]; Region: COG2006 871963007907 4Fe-4S binding domain; Region: Fer4; pfam00037 871963007908 4Fe-4S binding domain; Region: Fer4_6; pfam12837 871963007909 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 871963007910 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 871963007911 N-acetyl-D-glucosamine binding site [chemical binding]; other site 871963007912 catalytic residue [active] 871963007913 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 871963007914 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 871963007915 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 871963007916 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 871963007917 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 871963007918 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 871963007919 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 871963007920 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 871963007921 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 871963007922 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 871963007923 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 871963007924 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 871963007925 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 871963007926 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 871963007927 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 871963007928 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 871963007929 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 871963007930 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963007931 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 871963007932 DNA binding residues [nucleotide binding] 871963007933 ATP phosphoribosyltransferase; Region: HisG; cl15266 871963007934 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13488 871963007935 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 871963007936 CheC-like family; Region: CheC; pfam04509 871963007937 CheC-like family; Region: CheC; pfam04509 871963007938 Flagellar protein YcgR; Region: YcgR_2; pfam12945 871963007939 PilZ domain; Region: PilZ; pfam07238 871963007940 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 871963007941 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 871963007942 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 871963007943 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 871963007944 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 871963007945 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 871963007946 FHIPEP family; Region: FHIPEP; pfam00771 871963007947 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 871963007948 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 871963007949 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 871963007950 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 871963007951 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 871963007952 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 871963007953 Response regulator receiver domain; Region: Response_reg; pfam00072 871963007954 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963007955 active site 871963007956 phosphorylation site [posttranslational modification] 871963007957 intermolecular recognition site; other site 871963007958 dimerization interface [polypeptide binding]; other site 871963007959 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 871963007960 CheC-like family; Region: CheC; pfam04509 871963007961 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 871963007962 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 871963007963 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 871963007964 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 871963007965 Flagellar protein (FlbD); Region: FlbD; pfam06289 871963007966 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 871963007967 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 871963007968 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 871963007969 Walker A motif/ATP binding site; other site 871963007970 Walker B motif; other site 871963007971 Flagellar assembly protein FliH; Region: FliH; pfam02108 871963007972 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 871963007973 MgtE intracellular N domain; Region: MgtE_N; cl15244 871963007974 FliG C-terminal domain; Region: FliG_C; pfam01706 871963007975 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 871963007976 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 871963007977 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 871963007978 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 871963007979 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 871963007980 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 871963007981 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 871963007982 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 871963007983 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963007984 active site 871963007985 phosphorylation site [posttranslational modification] 871963007986 intermolecular recognition site; other site 871963007987 dimerization interface [polypeptide binding]; other site 871963007988 CheB methylesterase; Region: CheB_methylest; pfam01339 871963007989 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 871963007990 putative CheA interaction surface; other site 871963007991 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 871963007992 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 871963007993 putative binding surface; other site 871963007994 active site 871963007995 P2 response regulator binding domain; Region: P2; pfam07194 871963007996 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 871963007997 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963007998 ATP binding site [chemical binding]; other site 871963007999 Mg2+ binding site [ion binding]; other site 871963008000 G-X-G motif; other site 871963008001 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 871963008002 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 871963008003 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 871963008004 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 871963008005 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 871963008006 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 871963008007 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 871963008008 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 871963008009 Transposase; Region: HTH_Tnp_1; cl17663 871963008010 Domain of unknown function (DUF1900); Region: DUF1900; pfam08954 871963008011 FlaG protein; Region: FlaG; pfam03646 871963008012 Flagellar protein FliS; Region: FliS; cl00654 871963008013 flagellar capping protein; Validated; Region: fliD; PRK07737 871963008014 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 871963008015 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 871963008016 Putative motility protein; Region: YjfB_motility; pfam14070 871963008017 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 871963008018 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 871963008019 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 871963008020 flagellin; Provisional; Region: PRK12804 871963008021 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 871963008022 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 871963008023 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 871963008024 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 871963008025 active site 871963008026 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 871963008027 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 871963008028 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 871963008029 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 871963008030 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 871963008031 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 871963008032 active site 871963008033 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 871963008034 Methyltransferase domain; Region: Methyltransf_24; pfam13578 871963008035 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 871963008036 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 871963008037 active site 871963008038 Radical SAM superfamily; Region: Radical_SAM; pfam04055 871963008039 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 871963008040 FeS/SAM binding site; other site 871963008041 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 871963008042 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 871963008043 active site 871963008044 homodimer interface [polypeptide binding]; other site 871963008045 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 871963008046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871963008047 NAD(P) binding site [chemical binding]; other site 871963008048 active site 871963008049 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 871963008050 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 871963008051 NAD(P) binding site [chemical binding]; other site 871963008052 homodimer interface [polypeptide binding]; other site 871963008053 substrate binding site [chemical binding]; other site 871963008054 active site 871963008055 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 871963008056 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 871963008057 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 871963008058 substrate binding site; other site 871963008059 dimer interface; other site 871963008060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871963008061 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 871963008062 NAD(P) binding site [chemical binding]; other site 871963008063 active site 871963008064 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 871963008065 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 871963008066 putative metal binding site; other site 871963008067 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 871963008068 TPR motif; other site 871963008069 binding surface 871963008070 flagellin; Provisional; Region: PRK12804 871963008071 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 871963008072 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 871963008073 FlaG protein; Region: FlaG; pfam03646 871963008074 Global regulator protein family; Region: CsrA; pfam02599 871963008075 flagellar assembly protein FliW; Provisional; Region: PRK13285 871963008076 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 871963008077 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 871963008078 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 871963008079 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 871963008080 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 871963008081 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 871963008082 FlgN protein; Region: FlgN; pfam05130 871963008083 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 871963008084 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 871963008085 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 871963008086 flagellar motor protein MotD; Reviewed; Region: PRK09038 871963008087 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 871963008088 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 871963008089 ligand binding site [chemical binding]; other site 871963008090 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 871963008091 Peptidase family M28; Region: Peptidase_M28; pfam04389 871963008092 metal binding site [ion binding]; metal-binding site 871963008093 Protein of unknown function (DUF327); Region: DUF327; pfam03885 871963008094 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 871963008095 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 871963008096 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 871963008097 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 871963008098 Coenzyme A transferase; Region: CoA_trans; cl17247 871963008099 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 871963008100 citrate lyase subunit gamma; Provisional; Region: PRK13253 871963008101 Protein of unknown function (DUF1694); Region: DUF1694; pfam07997 871963008102 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 871963008103 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 871963008104 NAD binding site [chemical binding]; other site 871963008105 catalytic Zn binding site [ion binding]; other site 871963008106 structural Zn binding site [ion binding]; other site 871963008107 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 871963008108 Uncharacterized conserved protein [Function unknown]; Region: COG0327 871963008109 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 871963008110 Family of unknown function (DUF633); Region: DUF633; pfam04816 871963008111 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 871963008112 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 871963008113 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 871963008114 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 871963008115 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963008116 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 871963008117 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 871963008118 DNA binding residues [nucleotide binding] 871963008119 DNA primase; Validated; Region: dnaG; PRK05667 871963008120 CHC2 zinc finger; Region: zf-CHC2; pfam01807 871963008121 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 871963008122 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 871963008123 active site 871963008124 metal binding site [ion binding]; metal-binding site 871963008125 interdomain interaction site; other site 871963008126 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 871963008127 Sporulation and spore germination; Region: Germane; pfam10646 871963008128 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 871963008129 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963008130 Zn2+ binding site [ion binding]; other site 871963008131 Mg2+ binding site [ion binding]; other site 871963008132 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 871963008133 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 871963008134 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 871963008135 4Fe-4S binding domain; Region: Fer4; cl02805 871963008136 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 871963008137 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 871963008138 molybdopterin cofactor binding site; other site 871963008139 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 871963008140 molybdopterin cofactor binding site; other site 871963008141 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 871963008142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963008143 active site 871963008144 phosphorylation site [posttranslational modification] 871963008145 intermolecular recognition site; other site 871963008146 dimerization interface [polypeptide binding]; other site 871963008147 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 871963008148 DNA binding residues [nucleotide binding] 871963008149 dimerization interface [polypeptide binding]; other site 871963008150 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 871963008151 Histidine kinase; Region: HisKA_3; pfam07730 871963008152 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963008153 ATP binding site [chemical binding]; other site 871963008154 Mg2+ binding site [ion binding]; other site 871963008155 G-X-G motif; other site 871963008156 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 871963008157 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 871963008158 Helix-Turn-Helix DNA binding domain of putative HspR-like transcription regulators; Region: HTH_HspR-like_MBC; cd04767 871963008159 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 871963008160 DNA binding residues [nucleotide binding] 871963008161 putative dimer interface [polypeptide binding]; other site 871963008162 putative metal binding residues [ion binding]; other site 871963008163 Cytochrome c552; Region: Cytochrom_C552; pfam02335 871963008164 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 871963008165 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 871963008166 FIST C domain; Region: FIST_C; pfam10442 871963008167 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963008168 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963008169 metal binding site [ion binding]; metal-binding site 871963008170 active site 871963008171 I-site; other site 871963008172 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 871963008173 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 871963008174 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 871963008175 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963008176 active site 871963008177 phosphorylation site [posttranslational modification] 871963008178 intermolecular recognition site; other site 871963008179 dimerization interface [polypeptide binding]; other site 871963008180 LytTr DNA-binding domain; Region: LytTR; pfam04397 871963008181 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 871963008182 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 871963008183 pyruvate phosphate dikinase; Provisional; Region: PRK09279 871963008184 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 871963008185 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 871963008186 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 871963008187 PEP synthetase regulatory protein; Provisional; Region: PRK05339 871963008188 HTH domain; Region: HTH_11; pfam08279 871963008189 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_4; cd04617 871963008190 FOG: CBS domain [General function prediction only]; Region: COG0517 871963008191 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 871963008192 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 871963008193 DALR anticodon binding domain; Region: DALR_1; pfam05746 871963008194 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 871963008195 dimer interface [polypeptide binding]; other site 871963008196 motif 1; other site 871963008197 active site 871963008198 motif 2; other site 871963008199 motif 3; other site 871963008200 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 871963008201 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 871963008202 substrate binding site; other site 871963008203 tetramer interface; other site 871963008204 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 871963008205 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 871963008206 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 871963008207 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 871963008208 thiosulfate reductase PhsA; Provisional; Region: PRK15488 871963008209 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 871963008210 putative [Fe4-S4] binding site [ion binding]; other site 871963008211 putative molybdopterin cofactor binding site [chemical binding]; other site 871963008212 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 871963008213 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 871963008214 putative molybdopterin cofactor binding site; other site 871963008215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871963008216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 871963008217 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 871963008218 putative dimerization interface [polypeptide binding]; other site 871963008219 Sulphur transport; Region: Sulf_transp; pfam04143 871963008220 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 871963008221 CPxP motif; other site 871963008222 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 871963008223 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 871963008224 active site residue [active] 871963008225 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 871963008226 active site residue [active] 871963008227 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 871963008228 active site residue [active] 871963008229 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 871963008230 active site residue [active] 871963008231 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 871963008232 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 871963008233 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 871963008234 Walker A/P-loop; other site 871963008235 ATP binding site [chemical binding]; other site 871963008236 Q-loop/lid; other site 871963008237 ABC transporter signature motif; other site 871963008238 Walker B; other site 871963008239 D-loop; other site 871963008240 H-loop/switch region; other site 871963008241 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871963008242 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 871963008243 ABC-ATPase subunit interface; other site 871963008244 putative PBP binding loops; other site 871963008245 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 871963008246 NMT1-like family; Region: NMT1_2; pfam13379 871963008247 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 871963008248 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 871963008249 Ligand binding site; other site 871963008250 Putative Catalytic site; other site 871963008251 DXD motif; other site 871963008252 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 871963008253 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 871963008254 inhibitor-cofactor binding pocket; inhibition site 871963008255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963008256 catalytic residue [active] 871963008257 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 871963008258 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 871963008259 putative active site [active] 871963008260 putative NTP binding site [chemical binding]; other site 871963008261 putative nucleic acid binding site [nucleotide binding]; other site 871963008262 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 871963008263 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 871963008264 G1 box; other site 871963008265 putative GEF interaction site [polypeptide binding]; other site 871963008266 GTP/Mg2+ binding site [chemical binding]; other site 871963008267 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]; Region: TEF1; COG5256 871963008268 Switch I region; other site 871963008269 G2 box; other site 871963008270 G3 box; other site 871963008271 Switch II region; other site 871963008272 G4 box; other site 871963008273 G5 box; other site 871963008274 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 871963008275 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 871963008276 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 871963008277 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 871963008278 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 871963008279 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 871963008280 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 871963008281 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871963008282 catalytic residue [active] 871963008283 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 871963008284 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 871963008285 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 871963008286 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 871963008287 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 871963008288 4Fe-4S binding domain; Region: Fer4; pfam00037 871963008289 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 871963008290 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 871963008291 molybdopterin cofactor binding site; other site 871963008292 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 871963008293 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 871963008294 molybdopterin cofactor binding site; other site 871963008295 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 871963008296 Recombination protein O N terminal; Region: RecO_N; pfam11967 871963008297 Recombination protein O C terminal; Region: RecO_C; pfam02565 871963008298 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 871963008299 intersubunit interface [polypeptide binding]; other site 871963008300 active site 871963008301 catalytic residue [active] 871963008302 GTPase Era; Reviewed; Region: era; PRK00089 871963008303 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 871963008304 G1 box; other site 871963008305 GTP/Mg2+ binding site [chemical binding]; other site 871963008306 Switch I region; other site 871963008307 G2 box; other site 871963008308 Switch II region; other site 871963008309 G3 box; other site 871963008310 G4 box; other site 871963008311 G5 box; other site 871963008312 KH domain; Region: KH_2; pfam07650 871963008313 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 871963008314 active site 871963008315 catalytic motif [active] 871963008316 Zn binding site [ion binding]; other site 871963008317 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 871963008318 metal-binding heat shock protein; Provisional; Region: PRK00016 871963008319 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 871963008320 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 871963008321 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963008322 Zn2+ binding site [ion binding]; other site 871963008323 Mg2+ binding site [ion binding]; other site 871963008324 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 871963008325 PhoH-like protein; Region: PhoH; pfam02562 871963008326 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 871963008327 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 871963008328 YabP family; Region: YabP; cl06766 871963008329 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 871963008330 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 871963008331 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 871963008332 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 871963008333 hydrogenase 4 subunit F; Validated; Region: PRK06458 871963008334 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 871963008335 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 871963008336 NADH dehydrogenase; Region: NADHdh; cl00469 871963008337 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 871963008338 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 871963008339 active site 871963008340 catalytic triad [active] 871963008341 oxyanion hole [active] 871963008342 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 871963008343 putative deacylase active site [active] 871963008344 Yqey-like protein; Region: YqeY; pfam09424 871963008345 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 871963008346 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 871963008347 nucleotide binding site/active site [active] 871963008348 HIT family signature motif; other site 871963008349 catalytic residue [active] 871963008350 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 871963008351 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 871963008352 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 871963008353 FeS/SAM binding site; other site 871963008354 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 871963008355 RNA methyltransferase, RsmE family; Region: TIGR00046 871963008356 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 871963008357 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 871963008358 S-adenosylmethionine binding site [chemical binding]; other site 871963008359 chaperone protein DnaJ; Provisional; Region: PRK10767 871963008360 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 871963008361 HSP70 interaction site [polypeptide binding]; other site 871963008362 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 871963008363 substrate binding site [polypeptide binding]; other site 871963008364 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 871963008365 Zn binding sites [ion binding]; other site 871963008366 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 871963008367 dimer interface [polypeptide binding]; other site 871963008368 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 871963008369 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 871963008370 nucleotide binding site [chemical binding]; other site 871963008371 NEF interaction site [polypeptide binding]; other site 871963008372 SBD interface [polypeptide binding]; other site 871963008373 GrpE; Region: GrpE; pfam01025 871963008374 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 871963008375 dimer interface [polypeptide binding]; other site 871963008376 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 871963008377 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 871963008378 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 871963008379 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 871963008380 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 871963008381 FeS/SAM binding site; other site 871963008382 HemN C-terminal domain; Region: HemN_C; pfam06969 871963008383 GTP-binding protein LepA; Provisional; Region: PRK05433 871963008384 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 871963008385 G1 box; other site 871963008386 putative GEF interaction site [polypeptide binding]; other site 871963008387 GTP/Mg2+ binding site [chemical binding]; other site 871963008388 Switch I region; other site 871963008389 G2 box; other site 871963008390 G3 box; other site 871963008391 Switch II region; other site 871963008392 G4 box; other site 871963008393 G5 box; other site 871963008394 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 871963008395 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 871963008396 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 871963008397 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 871963008398 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 871963008399 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 871963008400 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 871963008401 stage II sporulation protein P; Region: spore_II_P; TIGR02867 871963008402 Membrane protein of unknown function; Region: DUF360; pfam04020 871963008403 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 871963008404 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 871963008405 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 871963008406 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 871963008407 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 871963008408 Competence protein; Region: Competence; pfam03772 871963008409 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 871963008410 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 871963008411 SLBB domain; Region: SLBB; pfam10531 871963008412 comEA protein; Region: comE; TIGR01259 871963008413 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 871963008414 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 871963008415 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 871963008416 HIGH motif; other site 871963008417 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 871963008418 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 871963008419 active site 871963008420 KMSKS motif; other site 871963008421 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 871963008422 tRNA binding surface [nucleotide binding]; other site 871963008423 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 871963008424 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963008425 Zn2+ binding site [ion binding]; other site 871963008426 Mg2+ binding site [ion binding]; other site 871963008427 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 871963008428 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 871963008429 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 871963008430 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 871963008431 active site 871963008432 (T/H)XGH motif; other site 871963008433 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 871963008434 GTPase CgtA; Reviewed; Region: obgE; PRK12297 871963008435 GTP1/OBG; Region: GTP1_OBG; pfam01018 871963008436 Obg GTPase; Region: Obg; cd01898 871963008437 G1 box; other site 871963008438 GTP/Mg2+ binding site [chemical binding]; other site 871963008439 Switch I region; other site 871963008440 G2 box; other site 871963008441 G3 box; other site 871963008442 Switch II region; other site 871963008443 G4 box; other site 871963008444 G5 box; other site 871963008445 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 871963008446 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 871963008447 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 871963008448 Protein of unknown function (DUF464); Region: DUF464; pfam04327 871963008449 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 871963008450 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 871963008451 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 871963008452 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 871963008453 acyl-activating enzyme (AAE) consensus motif; other site 871963008454 active site 871963008455 AMP binding site [chemical binding]; other site 871963008456 CoA binding site [chemical binding]; other site 871963008457 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 871963008458 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 871963008459 acyl-activating enzyme (AAE) consensus motif; other site 871963008460 AMP binding site [chemical binding]; other site 871963008461 active site 871963008462 CoA binding site [chemical binding]; other site 871963008463 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 871963008464 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 871963008465 active site 871963008466 NMT1/THI5 like; Region: NMT1; pfam09084 871963008467 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 871963008468 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 871963008469 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 871963008470 Walker A/P-loop; other site 871963008471 ATP binding site [chemical binding]; other site 871963008472 Q-loop/lid; other site 871963008473 ABC transporter signature motif; other site 871963008474 Walker B; other site 871963008475 D-loop; other site 871963008476 H-loop/switch region; other site 871963008477 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871963008478 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 871963008479 dimer interface [polypeptide binding]; other site 871963008480 conserved gate region; other site 871963008481 putative PBP binding loops; other site 871963008482 ABC-ATPase subunit interface; other site 871963008483 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 871963008484 TPR motif; other site 871963008485 binding surface 871963008486 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 871963008487 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 871963008488 putative ligand binding site [chemical binding]; other site 871963008489 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 871963008490 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 871963008491 TM-ABC transporter signature motif; other site 871963008492 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 871963008493 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 871963008494 TM-ABC transporter signature motif; other site 871963008495 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 871963008496 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 871963008497 Walker A/P-loop; other site 871963008498 ATP binding site [chemical binding]; other site 871963008499 Q-loop/lid; other site 871963008500 ABC transporter signature motif; other site 871963008501 Walker B; other site 871963008502 D-loop; other site 871963008503 H-loop/switch region; other site 871963008504 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 871963008505 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 871963008506 Walker A/P-loop; other site 871963008507 ATP binding site [chemical binding]; other site 871963008508 Q-loop/lid; other site 871963008509 ABC transporter signature motif; other site 871963008510 Walker B; other site 871963008511 D-loop; other site 871963008512 H-loop/switch region; other site 871963008513 3-dehydroquinate synthase; Provisional; Region: PRK02290 871963008514 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 871963008515 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 871963008516 putative active site; other site 871963008517 catalytic residue [active] 871963008518 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 871963008519 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 871963008520 homodimer interface [polypeptide binding]; other site 871963008521 oligonucleotide binding site [chemical binding]; other site 871963008522 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 871963008523 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 871963008524 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 871963008525 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 871963008526 B12 binding site [chemical binding]; other site 871963008527 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 871963008528 FeS/SAM binding site; other site 871963008529 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 871963008530 Peptidase family M50; Region: Peptidase_M50; pfam02163 871963008531 active site 871963008532 putative substrate binding region [chemical binding]; other site 871963008533 Peptidase family M23; Region: Peptidase_M23; pfam01551 871963008534 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 871963008535 Septum formation topological specificity factor MinE; Region: MinE; cl00538 871963008536 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 871963008537 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 871963008538 Switch I; other site 871963008539 Switch II; other site 871963008540 septum formation inhibitor; Reviewed; Region: minC; PRK00513 871963008541 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 871963008542 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 871963008543 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 871963008544 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 871963008545 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 871963008546 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 871963008547 rod shape-determining protein MreC; Provisional; Region: PRK13922 871963008548 rod shape-determining protein MreC; Region: MreC; pfam04085 871963008549 rod shape-determining protein MreB; Provisional; Region: PRK13927 871963008550 MreB and similar proteins; Region: MreB_like; cd10225 871963008551 nucleotide binding site [chemical binding]; other site 871963008552 Mg binding site [ion binding]; other site 871963008553 putative protofilament interaction site [polypeptide binding]; other site 871963008554 RodZ interaction site [polypeptide binding]; other site 871963008555 hypothetical protein; Reviewed; Region: PRK00024 871963008556 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 871963008557 MPN+ (JAMM) motif; other site 871963008558 Zinc-binding site [ion binding]; other site 871963008559 Maf-like protein; Region: Maf; pfam02545 871963008560 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 871963008561 active site 871963008562 dimer interface [polypeptide binding]; other site 871963008563 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 871963008564 Aspartase; Region: Aspartase; cd01357 871963008565 active sites [active] 871963008566 tetramer interface [polypeptide binding]; other site 871963008567 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 871963008568 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 871963008569 CoA binding domain; Region: CoA_binding; smart00881 871963008570 Sporulation related domain; Region: SPOR; cl10051 871963008571 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 871963008572 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 871963008573 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 871963008574 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 871963008575 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 871963008576 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 871963008577 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 871963008578 HIGH motif; other site 871963008579 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 871963008580 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 871963008581 active site 871963008582 KMSKS motif; other site 871963008583 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 871963008584 tRNA binding surface [nucleotide binding]; other site 871963008585 anticodon binding site; other site 871963008586 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 871963008587 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 871963008588 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 871963008589 dimerization interface [polypeptide binding]; other site 871963008590 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963008591 dimer interface [polypeptide binding]; other site 871963008592 putative CheW interface [polypeptide binding]; other site 871963008593 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 871963008594 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 871963008595 active site 871963008596 FMN binding site [chemical binding]; other site 871963008597 substrate binding site [chemical binding]; other site 871963008598 3Fe-4S cluster binding site [ion binding]; other site 871963008599 putative membrane protein, TIGR04086 family; Region: TIGR04086_membr 871963008600 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 871963008601 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963008602 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 871963008603 dinuclear metal binding motif [ion binding]; other site 871963008604 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 871963008605 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 871963008606 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 871963008607 G1 box; other site 871963008608 GTP/Mg2+ binding site [chemical binding]; other site 871963008609 Switch I region; other site 871963008610 G2 box; other site 871963008611 G3 box; other site 871963008612 Switch II region; other site 871963008613 G4 box; other site 871963008614 G5 box; other site 871963008615 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 871963008616 Found in ATP-dependent protease La (LON); Region: LON; smart00464 871963008617 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 871963008618 Walker A motif; other site 871963008619 ATP binding site [chemical binding]; other site 871963008620 Walker B motif; other site 871963008621 arginine finger; other site 871963008622 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 871963008623 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 871963008624 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 871963008625 Walker A motif; other site 871963008626 ATP binding site [chemical binding]; other site 871963008627 Walker B motif; other site 871963008628 arginine finger; other site 871963008629 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 871963008630 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 871963008631 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 871963008632 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 871963008633 Walker A motif; other site 871963008634 ATP binding site [chemical binding]; other site 871963008635 Walker B motif; other site 871963008636 arginine finger; other site 871963008637 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 871963008638 trigger factor; Provisional; Region: tig; PRK01490 871963008639 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 871963008640 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 871963008641 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 871963008642 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 871963008643 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 871963008644 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 871963008645 FAD binding domain; Region: FAD_binding_4; pfam01565 871963008646 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 871963008647 FAD binding domain; Region: FAD_binding_4; pfam01565 871963008648 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 871963008649 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 871963008650 Cysteine-rich domain; Region: CCG; pfam02754 871963008651 Cysteine-rich domain; Region: CCG; pfam02754 871963008652 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 871963008653 Transcriptional regulator [Transcription]; Region: IclR; COG1414 871963008654 Bacterial transcriptional regulator; Region: IclR; pfam01614 871963008655 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 871963008656 active site 871963008657 dimerization interface [polypeptide binding]; other site 871963008658 ribonuclease PH; Reviewed; Region: rph; PRK00173 871963008659 Ribonuclease PH; Region: RNase_PH_bact; cd11362 871963008660 hexamer interface [polypeptide binding]; other site 871963008661 active site 871963008662 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 871963008663 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 871963008664 S-adenosylmethionine binding site [chemical binding]; other site 871963008665 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963008666 Zn2+ binding site [ion binding]; other site 871963008667 Mg2+ binding site [ion binding]; other site 871963008668 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963008669 Zn2+ binding site [ion binding]; other site 871963008670 Mg2+ binding site [ion binding]; other site 871963008671 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 871963008672 heme-binding site [chemical binding]; other site 871963008673 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 871963008674 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963008675 dimer interface [polypeptide binding]; other site 871963008676 putative CheW interface [polypeptide binding]; other site 871963008677 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 871963008678 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 871963008679 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 871963008680 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 871963008681 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 871963008682 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 871963008683 putative active site [active] 871963008684 Fumarase C-terminus; Region: Fumerase_C; cl00795 871963008685 fumarate hydratase; Provisional; Region: PRK06246 871963008686 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 871963008687 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 871963008688 glutamate racemase; Provisional; Region: PRK00865 871963008689 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 871963008690 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 871963008691 Zn2+ binding site [ion binding]; other site 871963008692 Mg2+ binding site [ion binding]; other site 871963008693 Transcriptional regulators [Transcription]; Region: MarR; COG1846 871963008694 MarR family; Region: MarR; pfam01047 871963008695 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 871963008696 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 871963008697 Transcriptional regulators [Transcription]; Region: FadR; COG2186 871963008698 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963008699 DNA-binding site [nucleotide binding]; DNA binding site 871963008700 FCD domain; Region: FCD; pfam07729 871963008701 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 871963008702 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 871963008703 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 871963008704 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 871963008705 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 871963008706 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 871963008707 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 871963008708 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 871963008709 Sporulation and spore germination; Region: Germane; pfam10646 871963008710 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 871963008711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963008712 active site 871963008713 phosphorylation site [posttranslational modification] 871963008714 intermolecular recognition site; other site 871963008715 dimerization interface [polypeptide binding]; other site 871963008716 LytTr DNA-binding domain; Region: LytTR; smart00850 871963008717 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 871963008718 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 871963008719 Members of the SGNH-hydrolase superfamily, 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_like_4; cd04501 871963008720 active site 871963008721 catalytic triad [active] 871963008722 oxyanion hole [active] 871963008723 Protein of unknown function (DUF964); Region: DUF964; pfam06133 871963008724 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963008725 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 871963008726 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in uncharacterized protein from Archaeoglobus fulgidus (Af0060) and its bacterial homologs; Region: NTP-PPase_Af0060_like; cd11533 871963008727 homodimer interface [polypeptide binding]; other site 871963008728 metal binding site [ion binding]; metal-binding site 871963008729 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 871963008730 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 871963008731 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 871963008732 protein binding site [polypeptide binding]; other site 871963008733 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 871963008734 Catalytic dyad [active] 871963008735 Bacterial Ig-like domain; Region: Big_5; pfam13205 871963008736 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 871963008737 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 871963008738 minor groove reading motif; other site 871963008739 helix-hairpin-helix signature motif; other site 871963008740 substrate binding pocket [chemical binding]; other site 871963008741 active site 871963008742 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 871963008743 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 871963008744 DNA binding and oxoG recognition site [nucleotide binding] 871963008745 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 871963008746 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 871963008747 homodimer interface [polypeptide binding]; other site 871963008748 substrate-cofactor binding pocket; other site 871963008749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963008750 catalytic residue [active] 871963008751 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 871963008752 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 871963008753 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 871963008754 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 871963008755 dimerization interface [polypeptide binding]; other site 871963008756 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963008757 dimer interface [polypeptide binding]; other site 871963008758 putative CheW interface [polypeptide binding]; other site 871963008759 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 871963008760 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 871963008761 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 871963008762 anti sigma factor interaction site; other site 871963008763 regulatory phosphorylation site [posttranslational modification]; other site 871963008764 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 871963008765 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 871963008766 ATP binding site [chemical binding]; other site 871963008767 Mg2+ binding site [ion binding]; other site 871963008768 G-X-G motif; other site 871963008769 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 871963008770 PAS domain; Region: PAS_9; pfam13426 871963008771 putative active site [active] 871963008772 heme pocket [chemical binding]; other site 871963008773 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 871963008774 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 871963008775 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 871963008776 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 871963008777 Peptidase family M23; Region: Peptidase_M23; pfam01551 871963008778 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 871963008779 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 871963008780 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 871963008781 VanW like protein; Region: VanW; pfam04294 871963008782 G5 domain; Region: G5; pfam07501 871963008783 Fic family protein [Function unknown]; Region: COG3177 871963008784 Fic/DOC family; Region: Fic; pfam02661 871963008785 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008786 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008787 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008788 Transposase; Region: DEDD_Tnp_IS110; pfam01548 871963008789 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 871963008790 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 871963008791 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963008792 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963008793 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 871963008794 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963008795 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 871963008796 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 871963008797 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 871963008798 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 871963008799 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 871963008800 non-specific DNA binding site [nucleotide binding]; other site 871963008801 salt bridge; other site 871963008802 sequence-specific DNA binding site [nucleotide binding]; other site 871963008803 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 871963008804 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 871963008805 hexamer interface [polypeptide binding]; other site 871963008806 ligand binding site [chemical binding]; other site 871963008807 putative active site [active] 871963008808 NAD(P) binding site [chemical binding]; other site 871963008809 Fic family protein [Function unknown]; Region: COG3177 871963008810 Fic/DOC family; Region: Fic; pfam02661 871963008811 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 871963008812 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 871963008813 NAD binding site [chemical binding]; other site 871963008814 homodimer interface [polypeptide binding]; other site 871963008815 active site 871963008816 substrate binding site [chemical binding]; other site 871963008817 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 871963008818 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 871963008819 Uncharacterized conserved protein [Function unknown]; Region: COG4279 871963008820 SWIM zinc finger; Region: SWIM; pfam04434 871963008821 SNF2 Helicase protein; Region: DUF3670; pfam12419 871963008822 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 871963008823 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 871963008824 ATP binding site [chemical binding]; other site 871963008825 putative Mg++ binding site [ion binding]; other site 871963008826 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 871963008827 nucleotide binding region [chemical binding]; other site 871963008828 ATP-binding site [chemical binding]; other site 871963008829 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 871963008830 Walker A motif; other site 871963008831 ATP binding site [chemical binding]; other site 871963008832 Walker B motif; other site 871963008833 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 871963008834 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 871963008835 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 871963008836 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 871963008837 NAD binding site [chemical binding]; other site 871963008838 substrate binding site [chemical binding]; other site 871963008839 homodimer interface [polypeptide binding]; other site 871963008840 active site 871963008841 Predicted integral membrane protein [Function unknown]; Region: COG5652 871963008842 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 871963008843 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 871963008844 NAD binding site [chemical binding]; other site 871963008845 homodimer interface [polypeptide binding]; other site 871963008846 active site 871963008847 substrate binding site [chemical binding]; other site 871963008848 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 871963008849 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 871963008850 active site 871963008851 DNA binding site [nucleotide binding] 871963008852 Int/Topo IB signature motif; other site 871963008853 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 871963008854 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 871963008855 active site 871963008856 DNA binding site [nucleotide binding] 871963008857 Int/Topo IB signature motif; other site 871963008858 Transposase [DNA replication, recombination, and repair]; Region: COG5421 871963008859 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 871963008860 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 871963008861 Transposase; Region: HTH_Tnp_1; cl17663 871963008862 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 871963008863 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 871963008864 Walker A/P-loop; other site 871963008865 ATP binding site [chemical binding]; other site 871963008866 Q-loop/lid; other site 871963008867 ABC transporter signature motif; other site 871963008868 Walker B; other site 871963008869 D-loop; other site 871963008870 H-loop/switch region; other site 871963008871 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 871963008872 ABC-2 type transporter; Region: ABC2_membrane; cl17235 871963008873 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 871963008874 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 871963008875 active site 871963008876 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 871963008877 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 871963008878 UDP-galactopyranose mutase; Region: GLF; pfam03275 871963008879 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 871963008880 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 871963008881 Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u2_5s; cd10971 871963008882 putative active site [active] 871963008883 putative metal binding site [ion binding]; other site 871963008884 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 871963008885 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 871963008886 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 871963008887 PYR/PP interface [polypeptide binding]; other site 871963008888 dimer interface [polypeptide binding]; other site 871963008889 TPP binding site [chemical binding]; other site 871963008890 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 871963008891 transketolase; Reviewed; Region: PRK05899 871963008892 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 871963008893 TPP-binding site [chemical binding]; other site 871963008894 dimer interface [polypeptide binding]; other site 871963008895 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 871963008896 classical (c) SDRs; Region: SDR_c; cd05233 871963008897 NAD(P) binding site [chemical binding]; other site 871963008898 active site 871963008899 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 871963008900 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 871963008901 NAD(P) binding site [chemical binding]; other site 871963008902 active site 871963008903 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 871963008904 NAD(P) binding site [chemical binding]; other site 871963008905 catalytic residues [active] 871963008906 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 871963008907 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 871963008908 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 871963008909 acyl-activating enzyme (AAE) consensus motif; other site 871963008910 AMP binding site [chemical binding]; other site 871963008911 active site 871963008912 CoA binding site [chemical binding]; other site 871963008913 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 871963008914 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963008915 Acyltransferase family; Region: Acyl_transf_3; pfam01757 871963008916 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 871963008917 ligand binding site; other site 871963008918 tetramer interface; other site 871963008919 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 871963008920 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 871963008921 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 871963008922 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 871963008923 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 871963008924 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 871963008925 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 871963008926 active site 871963008927 homodimer interface [polypeptide binding]; other site 871963008928 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 871963008929 NeuB family; Region: NeuB; pfam03102 871963008930 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 871963008931 NeuB binding interface [polypeptide binding]; other site 871963008932 putative substrate binding site [chemical binding]; other site 871963008933 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 871963008934 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 871963008935 putative trimer interface [polypeptide binding]; other site 871963008936 putative CoA binding site [chemical binding]; other site 871963008937 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 871963008938 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 871963008939 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 871963008940 Substrate binding site; other site 871963008941 metal-binding site 871963008942 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 871963008943 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 871963008944 inhibitor-cofactor binding pocket; inhibition site 871963008945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963008946 catalytic residue [active] 871963008947 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 871963008948 putative trimer interface [polypeptide binding]; other site 871963008949 putative CoA binding site [chemical binding]; other site 871963008950 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 871963008951 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 871963008952 NAD binding site [chemical binding]; other site 871963008953 substrate binding site [chemical binding]; other site 871963008954 active site 871963008955 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 871963008956 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 871963008957 putative ADP-binding pocket [chemical binding]; other site 871963008958 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 871963008959 Bacterial sugar transferase; Region: Bac_transf; pfam02397 871963008960 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 871963008961 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 871963008962 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 871963008963 Interdomain contacts; other site 871963008964 Cytokine receptor motif; other site 871963008965 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008966 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008967 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008968 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 871963008969 Interdomain contacts; other site 871963008970 Cytokine receptor motif; other site 871963008971 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 871963008972 Interdomain contacts; other site 871963008973 Cytokine receptor motif; other site 871963008974 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; cl00065 871963008975 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 871963008976 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008977 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008978 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008979 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 871963008980 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 871963008981 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 871963008982 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 871963008983 Leucine rich repeat; Region: LRR_8; pfam13855 871963008984 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 871963008985 O-Antigen ligase; Region: Wzy_C; pfam04932 871963008986 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008987 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008988 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008989 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008990 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008991 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 871963008992 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 871963008993 active site 871963008994 metal binding site [ion binding]; metal-binding site 871963008995 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008996 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008997 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963008998 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 871963008999 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 871963009000 active site 871963009001 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 871963009002 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 871963009003 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 871963009004 inhibitor-cofactor binding pocket; inhibition site 871963009005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963009006 catalytic residue [active] 871963009007 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 871963009008 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 871963009009 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 871963009010 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 871963009011 glycogen/starch synthase, ADP-glucose type; Region: glgA; TIGR02095 871963009012 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 871963009013 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 871963009014 AAA domain; Region: AAA_14; pfam13173 871963009015 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 871963009016 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 871963009017 AAA ATPase domain; Region: AAA_16; pfam13191 871963009018 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 871963009019 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 871963009020 putative trimer interface [polypeptide binding]; other site 871963009021 putative CoA binding site [chemical binding]; other site 871963009022 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 871963009023 putative trimer interface [polypeptide binding]; other site 871963009024 putative active site [active] 871963009025 putative substrate binding site [chemical binding]; other site 871963009026 putative CoA binding site [chemical binding]; other site 871963009027 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 871963009028 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 871963009029 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 871963009030 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 871963009031 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 871963009032 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 871963009033 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 871963009034 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 871963009035 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 871963009036 NAD(P) binding site [chemical binding]; other site 871963009037 homodimer interface [polypeptide binding]; other site 871963009038 substrate binding site [chemical binding]; other site 871963009039 active site 871963009040 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 871963009041 N-acetyl-D-glucosamine binding site [chemical binding]; other site 871963009042 catalytic residue [active] 871963009043 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963009044 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963009045 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 871963009046 Predicted integral membrane protein [Function unknown]; Region: COG5658 871963009047 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 871963009048 SdpI/YhfL protein family; Region: SdpI; pfam13630 871963009049 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 871963009050 dimerization interface [polypeptide binding]; other site 871963009051 putative DNA binding site [nucleotide binding]; other site 871963009052 putative Zn2+ binding site [ion binding]; other site 871963009053 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 871963009054 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 871963009055 active site 871963009056 tetramer interface; other site 871963009057 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 871963009058 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 871963009059 oligomer interface [polypeptide binding]; other site 871963009060 active site residues [active] 871963009061 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 871963009062 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963009063 dimer interface [polypeptide binding]; other site 871963009064 putative CheW interface [polypeptide binding]; other site 871963009065 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 871963009066 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 871963009067 Cysteine-rich domain; Region: CCG; pfam02754 871963009068 Cysteine-rich domain; Region: CCG; pfam02754 871963009069 FAD binding domain; Region: FAD_binding_4; pfam01565 871963009070 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 871963009071 Transcriptional regulators [Transcription]; Region: FadR; COG2186 871963009072 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 871963009073 DNA-binding site [nucleotide binding]; DNA binding site 871963009074 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 871963009075 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 871963009076 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 871963009077 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 871963009078 HlyD family secretion protein; Region: HlyD_3; pfam13437 871963009079 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871963009080 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 871963009081 Protein of unknown function (DUF445); Region: DUF445; pfam04286 871963009082 Protein of unknown function (DUF445); Region: DUF445; pfam04286 871963009083 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 871963009084 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 871963009085 ligand binding site [chemical binding]; other site 871963009086 flexible hinge region; other site 871963009087 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 871963009088 non-specific DNA interactions [nucleotide binding]; other site 871963009089 DNA binding site [nucleotide binding] 871963009090 sequence specific DNA binding site [nucleotide binding]; other site 871963009091 putative cAMP binding site [chemical binding]; other site 871963009092 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 871963009093 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 871963009094 HlyD family secretion protein; Region: HlyD_3; pfam13437 871963009095 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 871963009096 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 871963009097 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 871963009098 4Fe-4S binding domain; Region: Fer4; cl02805 871963009099 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 871963009100 Cysteine-rich domain; Region: CCG; pfam02754 871963009101 Cysteine-rich domain; Region: CCG; pfam02754 871963009102 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 871963009103 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 871963009104 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 871963009105 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 871963009106 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 871963009107 active site 871963009108 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 871963009109 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 871963009110 dimer interface [polypeptide binding]; other site 871963009111 active site 871963009112 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 871963009113 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 871963009114 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 871963009115 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 871963009116 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 871963009117 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 871963009118 substrate binding site [chemical binding]; other site 871963009119 oxyanion hole (OAH) forming residues; other site 871963009120 trimer interface [polypeptide binding]; other site 871963009121 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871963009122 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 871963009123 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 871963009124 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 871963009125 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 871963009126 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 871963009127 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 871963009128 Ligand binding site [chemical binding]; other site 871963009129 Electron transfer flavoprotein domain; Region: ETF; pfam01012 871963009130 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 871963009131 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 871963009132 active site 871963009133 FMN binding site [chemical binding]; other site 871963009134 substrate binding site [chemical binding]; other site 871963009135 putative catalytic residue [active] 871963009136 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 871963009137 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 871963009138 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 871963009139 substrate binding site [chemical binding]; other site 871963009140 oxyanion hole (OAH) forming residues; other site 871963009141 trimer interface [polypeptide binding]; other site 871963009142 hybrid cluster protein; Provisional; Region: PRK05290 871963009143 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 871963009144 ACS interaction site; other site 871963009145 CODH interaction site; other site 871963009146 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 871963009147 hybrid metal cluster; other site 871963009148 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 871963009149 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 871963009150 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 871963009151 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 871963009152 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 871963009153 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 871963009154 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 871963009155 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 871963009156 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 871963009157 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 871963009158 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 871963009159 XdhC Rossmann domain; Region: XdhC_C; pfam13478 871963009160 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 871963009161 Ligand binding site; other site 871963009162 metal-binding site 871963009163 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 871963009164 xanthine permease; Region: pbuX; TIGR03173 871963009165 Response regulator receiver domain; Region: Response_reg; pfam00072 871963009166 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963009167 active site 871963009168 phosphorylation site [posttranslational modification] 871963009169 intermolecular recognition site; other site 871963009170 dimerization interface [polypeptide binding]; other site 871963009171 PAS domain S-box; Region: sensory_box; TIGR00229 871963009172 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 871963009173 putative active site [active] 871963009174 heme pocket [chemical binding]; other site 871963009175 PAS domain S-box; Region: sensory_box; TIGR00229 871963009176 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 871963009177 putative active site [active] 871963009178 heme pocket [chemical binding]; other site 871963009179 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 871963009180 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963009181 dimer interface [polypeptide binding]; other site 871963009182 phosphorylation site [posttranslational modification] 871963009183 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963009184 ATP binding site [chemical binding]; other site 871963009185 Mg2+ binding site [ion binding]; other site 871963009186 G-X-G motif; other site 871963009187 Response regulator receiver domain; Region: Response_reg; pfam00072 871963009188 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963009189 active site 871963009190 phosphorylation site [posttranslational modification] 871963009191 intermolecular recognition site; other site 871963009192 dimerization interface [polypeptide binding]; other site 871963009193 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 871963009194 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871963009195 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 871963009196 Cache domain; Region: Cache_1; pfam02743 871963009197 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 871963009198 dimerization interface [polypeptide binding]; other site 871963009199 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 871963009200 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963009201 dimer interface [polypeptide binding]; other site 871963009202 putative CheW interface [polypeptide binding]; other site 871963009203 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 871963009204 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963009205 metal binding site [ion binding]; metal-binding site 871963009206 active site 871963009207 I-site; other site 871963009208 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 871963009209 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 871963009210 Walker A/P-loop; other site 871963009211 ATP binding site [chemical binding]; other site 871963009212 Q-loop/lid; other site 871963009213 ABC transporter signature motif; other site 871963009214 Walker B; other site 871963009215 D-loop; other site 871963009216 H-loop/switch region; other site 871963009217 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 871963009218 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 871963009219 dimer interface [polypeptide binding]; other site 871963009220 conserved gate region; other site 871963009221 putative PBP binding loops; other site 871963009222 ABC-ATPase subunit interface; other site 871963009223 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 871963009224 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 871963009225 substrate binding pocket [chemical binding]; other site 871963009226 membrane-bound complex binding site; other site 871963009227 hinge residues; other site 871963009228 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 871963009229 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963009230 Walker A/P-loop; other site 871963009231 ATP binding site [chemical binding]; other site 871963009232 Q-loop/lid; other site 871963009233 ABC transporter signature motif; other site 871963009234 Walker B; other site 871963009235 D-loop; other site 871963009236 H-loop/switch region; other site 871963009237 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 871963009238 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 871963009239 TM-ABC transporter signature motif; other site 871963009240 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 871963009241 zinc binding site [ion binding]; other site 871963009242 putative ligand binding site [chemical binding]; other site 871963009243 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 871963009244 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 871963009245 metal binding site [ion binding]; metal-binding site 871963009246 active site 871963009247 I-site; other site 871963009248 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 871963009249 NMT1-like family; Region: NMT1_2; pfam13379 871963009250 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 871963009251 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 871963009252 dimer interface [polypeptide binding]; other site 871963009253 conserved gate region; other site 871963009254 putative PBP binding loops; other site 871963009255 ABC-ATPase subunit interface; other site 871963009256 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 871963009257 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 871963009258 Walker A/P-loop; other site 871963009259 ATP binding site [chemical binding]; other site 871963009260 Q-loop/lid; other site 871963009261 ABC transporter signature motif; other site 871963009262 Walker B; other site 871963009263 D-loop; other site 871963009264 H-loop/switch region; other site 871963009265 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963009266 Walker A/P-loop; other site 871963009267 ATP binding site [chemical binding]; other site 871963009268 Q-loop/lid; other site 871963009269 ABC transporter signature motif; other site 871963009270 Walker B; other site 871963009271 D-loop; other site 871963009272 H-loop/switch region; other site 871963009273 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 871963009274 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 871963009275 putative PBP binding loops; other site 871963009276 dimer interface [polypeptide binding]; other site 871963009277 ABC-ATPase subunit interface; other site 871963009278 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 871963009279 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 871963009280 DNA binding domain, excisionase family; Region: excise; TIGR01764 871963009281 PBP superfamily domain; Region: PBP_like; pfam12727 871963009282 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 871963009283 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 871963009284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963009285 homodimer interface [polypeptide binding]; other site 871963009286 catalytic residue [active] 871963009287 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 871963009288 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 871963009289 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 871963009290 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 871963009291 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; cd00350 871963009292 Rubredoxin; Region: Rubredoxin; pfam00301 871963009293 iron binding site [ion binding]; other site 871963009294 Rubrerythrin [Energy production and conversion]; Region: COG1592 871963009295 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 871963009296 diiron binding motif [ion binding]; other site 871963009297 Transcriptional regulator [Transcription]; Region: LysR; COG0583 871963009298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 871963009299 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 871963009300 putative dimerization interface [polypeptide binding]; other site 871963009301 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 871963009302 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 871963009303 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 871963009304 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871963009305 catalytic residue [active] 871963009306 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 871963009307 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 871963009308 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 871963009309 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 871963009310 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 871963009311 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 871963009312 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 871963009313 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 871963009314 molybdopterin cofactor binding site; other site 871963009315 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 871963009316 molybdopterin cofactor binding site; other site 871963009317 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 871963009318 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 871963009319 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 871963009320 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 871963009321 putative [4Fe-4S] binding site [ion binding]; other site 871963009322 putative molybdopterin cofactor binding site [chemical binding]; other site 871963009323 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 871963009324 molybdopterin cofactor binding site; other site 871963009325 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 871963009326 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 871963009327 Uncharacterized conserved protein [Function unknown]; Region: COG4198 871963009328 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 871963009329 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 871963009330 glycerate dehydrogenase; Provisional; Region: PRK06436 871963009331 putative ligand binding site [chemical binding]; other site 871963009332 putative NAD binding site [chemical binding]; other site 871963009333 putative catalytic site [active] 871963009334 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 871963009335 L-serine binding site [chemical binding]; other site 871963009336 ACT domain interface; other site 871963009337 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 871963009338 homodimer interface [polypeptide binding]; other site 871963009339 substrate-cofactor binding pocket; other site 871963009340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 871963009341 catalytic residue [active] 871963009342 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 871963009343 Homoserine O-succinyltransferase; Region: HTS; pfam04204 871963009344 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 871963009345 proposed active site lysine [active] 871963009346 conserved cys residue [active] 871963009347 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 871963009348 active site 871963009349 putative catalytic site [active] 871963009350 DNA binding site [nucleotide binding] 871963009351 putative phosphate binding site [ion binding]; other site 871963009352 metal binding site A [ion binding]; metal-binding site 871963009353 AP binding site [nucleotide binding]; other site 871963009354 metal binding site B [ion binding]; metal-binding site 871963009355 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 871963009356 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 871963009357 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 871963009358 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 871963009359 active site 871963009360 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 871963009361 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 871963009362 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 871963009363 CPxP motif; other site 871963009364 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 871963009365 selenophosphate synthetase; Provisional; Region: PRK00943 871963009366 dimerization interface [polypeptide binding]; other site 871963009367 putative ATP binding site [chemical binding]; other site 871963009368 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 871963009369 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 871963009370 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871963009371 catalytic residue [active] 871963009372 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 871963009373 dimer interface [polypeptide binding]; other site 871963009374 putative CheW interface [polypeptide binding]; other site 871963009375 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 871963009376 CmuC_like. Proteins similar to the putative corrinoid methyltransferase CmuC. Its function has been inferred from sequence similarity to the methyltransferases CmuA and MtaA. Mutants of Methylobacterium sp. disrupted in cmuC and purU appear deficient in...; Region: CmuC_like; cd03309 871963009377 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 871963009378 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 871963009379 B12 binding site [chemical binding]; other site 871963009380 cobalt ligand [ion binding]; other site 871963009381 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 871963009382 substrate binding pocket [chemical binding]; other site 871963009383 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 871963009384 dimer interface [polypeptide binding]; other site 871963009385 inhibitor binding site; inhibition site 871963009386 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 871963009387 Ligand Binding Site [chemical binding]; other site 871963009388 Probable zinc-binding domain; Region: zf-trcl; pfam13451 871963009389 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 871963009390 thymidine kinase; Provisional; Region: PRK04296 871963009391 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 871963009392 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 871963009393 PhnA protein; Region: PhnA; pfam03831 871963009394 transposase/IS protein; Provisional; Region: PRK09183 871963009395 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 871963009396 Walker A motif; other site 871963009397 ATP binding site [chemical binding]; other site 871963009398 Walker B motif; other site 871963009399 arginine finger; other site 871963009400 DNA-sulfur modification-associated; Region: DndB; cl17621 871963009401 DGQHR domain; Region: DGQHR; TIGR03187 871963009402 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 871963009403 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 871963009404 GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]; Region: GuaA; COG0519 871963009405 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 871963009406 ATP Binding subdomain [chemical binding]; other site 871963009407 Ligand Binding sites [chemical binding]; other site 871963009408 Dimerization subdomain; other site 871963009409 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 871963009410 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 871963009411 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 871963009412 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 871963009413 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 871963009414 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 871963009415 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 871963009416 Walker A/P-loop; other site 871963009417 ATP binding site [chemical binding]; other site 871963009418 Q-loop/lid; other site 871963009419 ABC transporter signature motif; other site 871963009420 Walker B; other site 871963009421 D-loop; other site 871963009422 H-loop/switch region; other site 871963009423 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 871963009424 FtsX-like permease family; Region: FtsX; pfam02687 871963009425 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 871963009426 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 871963009427 FtsX-like permease family; Region: FtsX; pfam02687 871963009428 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 871963009429 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 871963009430 HlyD family secretion protein; Region: HlyD_3; pfam13437 871963009431 glycerol kinase; Provisional; Region: glpK; PRK00047 871963009432 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 871963009433 N- and C-terminal domain interface [polypeptide binding]; other site 871963009434 active site 871963009435 MgATP binding site [chemical binding]; other site 871963009436 catalytic site [active] 871963009437 metal binding site [ion binding]; metal-binding site 871963009438 glycerol binding site [chemical binding]; other site 871963009439 homotetramer interface [polypeptide binding]; other site 871963009440 homodimer interface [polypeptide binding]; other site 871963009441 FBP binding site [chemical binding]; other site 871963009442 protein IIAGlc interface [polypeptide binding]; other site 871963009443 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 871963009444 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 871963009445 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 871963009446 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 871963009447 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 871963009448 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 871963009449 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 871963009450 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963009451 active site 871963009452 phosphorylation site [posttranslational modification] 871963009453 intermolecular recognition site; other site 871963009454 dimerization interface [polypeptide binding]; other site 871963009455 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 871963009456 DNA binding site [nucleotide binding] 871963009457 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 871963009458 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 871963009459 dimerization interface [polypeptide binding]; other site 871963009460 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 871963009461 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 871963009462 dimer interface [polypeptide binding]; other site 871963009463 phosphorylation site [posttranslational modification] 871963009464 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 871963009465 ATP binding site [chemical binding]; other site 871963009466 Mg2+ binding site [ion binding]; other site 871963009467 G-X-G motif; other site 871963009468 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 871963009469 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 871963009470 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 871963009471 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 871963009472 4Fe-4S binding domain; Region: Fer4; cl02805 871963009473 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 871963009474 The MopB_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_4; cd02765 871963009475 putative [4Fe-4S] binding site [ion binding]; other site 871963009476 putative molybdopterin cofactor binding site [chemical binding]; other site 871963009477 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_4; cd02785 871963009478 putative molybdopterin cofactor binding site; other site 871963009479 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 871963009480 SmpB-tmRNA interface; other site 871963009481 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 871963009482 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 871963009483 Preprotein translocase SecG subunit; Region: SecG; pfam03840 871963009484 enolase; Provisional; Region: eno; PRK00077 871963009485 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 871963009486 dimer interface [polypeptide binding]; other site 871963009487 metal binding site [ion binding]; metal-binding site 871963009488 substrate binding pocket [chemical binding]; other site 871963009489 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 871963009490 phosphoglyceromutase; Provisional; Region: PRK05434 871963009491 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 871963009492 triosephosphate isomerase; Provisional; Region: PRK14565 871963009493 substrate binding site [chemical binding]; other site 871963009494 dimer interface [polypeptide binding]; other site 871963009495 catalytic triad [active] 871963009496 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 871963009497 Phosphoglycerate kinase; Region: PGK; pfam00162 871963009498 substrate binding site [chemical binding]; other site 871963009499 hinge regions; other site 871963009500 ADP binding site [chemical binding]; other site 871963009501 catalytic site [active] 871963009502 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 871963009503 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 871963009504 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 871963009505 PhoU domain; Region: PhoU; pfam01895 871963009506 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 871963009507 PhoU domain; Region: PhoU; pfam01895 871963009508 PhoU domain; Region: PhoU; pfam01895 871963009509 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 871963009510 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 871963009511 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 871963009512 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 871963009513 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 871963009514 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 871963009515 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 871963009516 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 871963009517 phosphate binding site [ion binding]; other site 871963009518 putative substrate binding pocket [chemical binding]; other site 871963009519 dimer interface [polypeptide binding]; other site 871963009520 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 871963009521 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 871963009522 B12 binding domain; Region: B12-binding; pfam02310 871963009523 B12 binding site [chemical binding]; other site 871963009524 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 871963009525 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 871963009526 FeS/SAM binding site; other site 871963009527 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 871963009528 Transposase; Region: DEDD_Tnp_IS110; pfam01548 871963009529 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 871963009530 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 871963009531 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 871963009532 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 871963009533 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963009534 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 871963009535 Glyco_18 domain; Region: Glyco_18; smart00636 871963009536 active site 871963009537 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 871963009538 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 871963009539 NodB motif; other site 871963009540 active site 871963009541 catalytic site [active] 871963009542 Zn binding site [ion binding]; other site 871963009543 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 871963009544 DsrC like protein; Region: DsrC; pfam04358 871963009545 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 871963009546 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 871963009547 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 871963009548 putative homodimer interface [polypeptide binding]; other site 871963009549 putative homotetramer interface [polypeptide binding]; other site 871963009550 putative allosteric switch controlling residues; other site 871963009551 putative metal binding site [ion binding]; other site 871963009552 putative homodimer-homodimer interface [polypeptide binding]; other site 871963009553 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 871963009554 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 871963009555 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 871963009556 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 871963009557 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 871963009558 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 871963009559 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 871963009560 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 871963009561 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 871963009562 ligand binding site [chemical binding]; other site 871963009563 hypothetical protein; Provisional; Region: PRK06851 871963009564 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963009565 Walker A/P-loop; other site 871963009566 ATP binding site [chemical binding]; other site 871963009567 Q-loop/lid; other site 871963009568 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 871963009569 C-terminal peptidase (prc); Region: prc; TIGR00225 871963009570 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 871963009571 protein binding site [polypeptide binding]; other site 871963009572 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 871963009573 Catalytic dyad [active] 871963009574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 871963009575 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 871963009576 Peptidase family M23; Region: Peptidase_M23; pfam01551 871963009577 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 871963009578 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 871963009579 FtsX-like permease family; Region: FtsX; pfam02687 871963009580 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 871963009581 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 871963009582 Walker A/P-loop; other site 871963009583 ATP binding site [chemical binding]; other site 871963009584 Q-loop/lid; other site 871963009585 ABC transporter signature motif; other site 871963009586 Walker B; other site 871963009587 D-loop; other site 871963009588 H-loop/switch region; other site 871963009589 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 871963009590 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 871963009591 PYR/PP interface [polypeptide binding]; other site 871963009592 dimer interface [polypeptide binding]; other site 871963009593 TPP binding site [chemical binding]; other site 871963009594 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 871963009595 transketolase; Reviewed; Region: PRK05899 871963009596 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 871963009597 TPP-binding site [chemical binding]; other site 871963009598 dimer interface [polypeptide binding]; other site 871963009599 peptide chain release factor 2; Validated; Region: prfB; PRK00578 871963009600 This domain is found in peptide chain release factors; Region: PCRF; smart00937 871963009601 RF-1 domain; Region: RF-1; pfam00472 871963009602 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 871963009603 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 871963009604 ATP binding site [chemical binding]; other site 871963009605 putative Mg++ binding site [ion binding]; other site 871963009606 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 871963009607 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 871963009608 nucleotide binding region [chemical binding]; other site 871963009609 ATP-binding site [chemical binding]; other site 871963009610 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 871963009611 30S subunit binding site; other site 871963009612 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 871963009613 DNA-binding site [nucleotide binding]; DNA binding site 871963009614 RNA-binding motif; other site 871963009615 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 871963009616 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 871963009617 Walker A/P-loop; other site 871963009618 ATP binding site [chemical binding]; other site 871963009619 Q-loop/lid; other site 871963009620 ABC transporter signature motif; other site 871963009621 Walker B; other site 871963009622 D-loop; other site 871963009623 H-loop/switch region; other site 871963009624 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 871963009625 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 871963009626 dimer interface [polypeptide binding]; other site 871963009627 conserved gate region; other site 871963009628 putative PBP binding loops; other site 871963009629 ABC-ATPase subunit interface; other site 871963009630 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 871963009631 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 871963009632 substrate binding pocket [chemical binding]; other site 871963009633 membrane-bound complex binding site; other site 871963009634 hinge residues; other site 871963009635 Probable zinc-binding domain; Region: zf-trcl; pfam13451 871963009636 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 871963009637 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 871963009638 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871963009639 active site 871963009640 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 871963009641 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 871963009642 ATP binding site [chemical binding]; other site 871963009643 putative Mg++ binding site [ion binding]; other site 871963009644 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 871963009645 nucleotide binding region [chemical binding]; other site 871963009646 ATP-binding site [chemical binding]; other site 871963009647 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 871963009648 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 871963009649 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 871963009650 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 871963009651 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 871963009652 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 871963009653 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 871963009654 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 871963009655 rod shape-determining protein Mbl; Provisional; Region: PRK13928 871963009656 MreB and similar proteins; Region: MreB_like; cd10225 871963009657 nucleotide binding site [chemical binding]; other site 871963009658 Mg binding site [ion binding]; other site 871963009659 putative protofilament interaction site [polypeptide binding]; other site 871963009660 RodZ interaction site [polypeptide binding]; other site 871963009661 Stage III sporulation protein D; Region: SpoIIID; pfam12116 871963009662 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 871963009663 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 871963009664 dimer interface [polypeptide binding]; other site 871963009665 PYR/PP interface [polypeptide binding]; other site 871963009666 TPP binding site [chemical binding]; other site 871963009667 substrate binding site [chemical binding]; other site 871963009668 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 871963009669 Domain of unknown function; Region: EKR; pfam10371 871963009670 4Fe-4S binding domain; Region: Fer4_6; pfam12837 871963009671 4Fe-4S binding domain; Region: Fer4; pfam00037 871963009672 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 871963009673 TPP-binding site [chemical binding]; other site 871963009674 dimer interface [polypeptide binding]; other site 871963009675 Domain of unknown function (DUF3787); Region: DUF3787; pfam12655 871963009676 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 871963009677 Peptidase family M23; Region: Peptidase_M23; pfam01551 871963009678 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 871963009679 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 871963009680 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 871963009681 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 871963009682 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 871963009683 catalytic residues [active] 871963009684 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 871963009685 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 871963009686 ligand binding site [chemical binding]; other site 871963009687 flexible hinge region; other site 871963009688 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 871963009689 non-specific DNA interactions [nucleotide binding]; other site 871963009690 DNA binding site [nucleotide binding] 871963009691 sequence specific DNA binding site [nucleotide binding]; other site 871963009692 putative cAMP binding site [chemical binding]; other site 871963009693 putative acyltransferase; Provisional; Region: PRK05790 871963009694 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 871963009695 dimer interface [polypeptide binding]; other site 871963009696 active site 871963009697 DNA topoisomerase III; Provisional; Region: PRK07726 871963009698 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 871963009699 active site 871963009700 putative interdomain interaction site [polypeptide binding]; other site 871963009701 putative metal-binding site [ion binding]; other site 871963009702 putative nucleotide binding site [chemical binding]; other site 871963009703 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 871963009704 domain I; other site 871963009705 DNA binding groove [nucleotide binding] 871963009706 phosphate binding site [ion binding]; other site 871963009707 domain II; other site 871963009708 domain III; other site 871963009709 nucleotide binding site [chemical binding]; other site 871963009710 catalytic site [active] 871963009711 domain IV; other site 871963009712 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 871963009713 Stage II sporulation protein; Region: SpoIID; pfam08486 871963009714 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 871963009715 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 871963009716 hinge; other site 871963009717 active site 871963009718 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 871963009719 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 871963009720 gamma subunit interface [polypeptide binding]; other site 871963009721 epsilon subunit interface [polypeptide binding]; other site 871963009722 LBP interface [polypeptide binding]; other site 871963009723 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 871963009724 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 871963009725 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 871963009726 alpha subunit interaction interface [polypeptide binding]; other site 871963009727 Walker A motif; other site 871963009728 ATP binding site [chemical binding]; other site 871963009729 Walker B motif; other site 871963009730 inhibitor binding site; inhibition site 871963009731 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 871963009732 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 871963009733 core domain interface [polypeptide binding]; other site 871963009734 delta subunit interface [polypeptide binding]; other site 871963009735 epsilon subunit interface [polypeptide binding]; other site 871963009736 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 871963009737 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 871963009738 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 871963009739 beta subunit interaction interface [polypeptide binding]; other site 871963009740 Walker A motif; other site 871963009741 ATP binding site [chemical binding]; other site 871963009742 Walker B motif; other site 871963009743 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 871963009744 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 871963009745 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 871963009746 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 871963009747 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 871963009748 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 871963009749 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 871963009750 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 871963009751 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 871963009752 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 871963009753 active site 871963009754 homodimer interface [polypeptide binding]; other site 871963009755 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 871963009756 catalytic motif [active] 871963009757 Zn binding site [ion binding]; other site 871963009758 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 871963009759 active site 871963009760 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 871963009761 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 871963009762 dimer interface [polypeptide binding]; other site 871963009763 active site 871963009764 glycine-pyridoxal phosphate binding site [chemical binding]; other site 871963009765 folate binding site [chemical binding]; other site 871963009766 hypothetical protein; Provisional; Region: PRK13690 871963009767 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 871963009768 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 871963009769 Low molecular weight phosphatase family; Region: LMWPc; cd00115 871963009770 active site 871963009771 Predicted membrane protein [Function unknown]; Region: COG1971 871963009772 Domain of unknown function DUF; Region: DUF204; pfam02659 871963009773 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 871963009774 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 871963009775 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 871963009776 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 871963009777 S-adenosylmethionine binding site [chemical binding]; other site 871963009778 peptide chain release factor 1; Validated; Region: prfA; PRK00591 871963009779 This domain is found in peptide chain release factors; Region: PCRF; smart00937 871963009780 RF-1 domain; Region: RF-1; pfam00472 871963009781 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 871963009782 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 871963009783 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 871963009784 Peptidase family M23; Region: Peptidase_M23; pfam01551 871963009785 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 871963009786 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 871963009787 putative active site [active] 871963009788 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 871963009789 active site 871963009790 intersubunit interactions; other site 871963009791 catalytic residue [active] 871963009792 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 871963009793 intersubunit interface [polypeptide binding]; other site 871963009794 active site 871963009795 zinc binding site [ion binding]; other site 871963009796 Na+ binding site [ion binding]; other site 871963009797 Response regulator receiver domain; Region: Response_reg; pfam00072 871963009798 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 871963009799 active site 871963009800 phosphorylation site [posttranslational modification] 871963009801 intermolecular recognition site; other site 871963009802 dimerization interface [polypeptide binding]; other site 871963009803 alanine racemase; Reviewed; Region: alr; PRK00053 871963009804 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 871963009805 active site 871963009806 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 871963009807 dimer interface [polypeptide binding]; other site 871963009808 substrate binding site [chemical binding]; other site 871963009809 catalytic residues [active] 871963009810 FemAB family; Region: FemAB; pfam02388 871963009811 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 871963009812 CTP synthetase; Validated; Region: pyrG; PRK05380 871963009813 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 871963009814 Catalytic site [active] 871963009815 active site 871963009816 UTP binding site [chemical binding]; other site 871963009817 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 871963009818 active site 871963009819 putative oxyanion hole; other site 871963009820 catalytic triad [active] 871963009821 DNA-directed RNA polymerase subunit delta; Reviewed; Region: PRK02363 871963009822 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 871963009823 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 871963009824 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 871963009825 active site 871963009826 HIGH motif; other site 871963009827 KMSK motif region; other site 871963009828 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 871963009829 tRNA binding surface [nucleotide binding]; other site 871963009830 anticodon binding site; other site 871963009831 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 871963009832 germination protein YpeB; Region: spore_YpeB; TIGR02889 871963009833 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 871963009834 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 871963009835 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 871963009836 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 871963009837 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 871963009838 catalytic residue [active] 871963009839 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 871963009840 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 871963009841 putative dimer interface [polypeptide binding]; other site 871963009842 putative anticodon binding site; other site 871963009843 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 871963009844 homodimer interface [polypeptide binding]; other site 871963009845 motif 1; other site 871963009846 motif 2; other site 871963009847 active site 871963009848 motif 3; other site 871963009849 glutamate dehydrogenase; Provisional; Region: PRK09414 871963009850 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 871963009851 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 871963009852 NAD(P) binding site [chemical binding]; other site 871963009853 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 871963009854 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 871963009855 active site 871963009856 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 871963009857 substrate binding site [chemical binding]; other site 871963009858 catalytic residues [active] 871963009859 dimer interface [polypeptide binding]; other site 871963009860 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 871963009861 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 871963009862 putative deacylase active site [active] 871963009863 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 871963009864 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 871963009865 active site 871963009866 HIGH motif; other site 871963009867 nucleotide binding site [chemical binding]; other site 871963009868 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 871963009869 KMSKS motif; other site 871963009870 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 871963009871 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 871963009872 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 871963009873 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 871963009874 amino acid carrier protein; Region: agcS; TIGR00835 871963009875 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 871963009876 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 871963009877 dimer interface [polypeptide binding]; other site 871963009878 active site 871963009879 metal binding site [ion binding]; metal-binding site 871963009880 glutathione binding site [chemical binding]; other site 871963009881 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 871963009882 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 871963009883 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 871963009884 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 871963009885 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 871963009886 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 871963009887 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 871963009888 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 871963009889 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 871963009890 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 871963009891 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 871963009892 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 871963009893 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 871963009894 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 871963009895 TPR motif; other site 871963009896 TPR repeat; Region: TPR_11; pfam13414 871963009897 binding surface 871963009898 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 871963009899 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 871963009900 putative [4Fe-4S] binding site [ion binding]; other site 871963009901 putative molybdopterin cofactor binding site [chemical binding]; other site 871963009902 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 871963009903 molybdopterin cofactor binding site; other site 871963009904 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 871963009905 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 871963009906 FeS/SAM binding site; other site 871963009907 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 871963009908 Protein of unknown function (DUF4001); Region: DUF4001; pfam13165 871963009909 Helix-turn-helix domain; Region: HTH_38; pfam13936 871963009910 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 871963009911 Integrase core domain; Region: rve; pfam00665 871963009912 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 871963009913 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 871963009914 Walker A/P-loop; other site 871963009915 ATP binding site [chemical binding]; other site 871963009916 Q-loop/lid; other site 871963009917 ABC transporter signature motif; other site 871963009918 Walker B; other site 871963009919 D-loop; other site 871963009920 H-loop/switch region; other site 871963009921 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 871963009922 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 871963009923 Walker A/P-loop; other site 871963009924 ATP binding site [chemical binding]; other site 871963009925 Q-loop/lid; other site 871963009926 ABC transporter signature motif; other site 871963009927 Walker B; other site 871963009928 D-loop; other site 871963009929 H-loop/switch region; other site 871963009930 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 871963009931 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 871963009932 TM-ABC transporter signature motif; other site 871963009933 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 871963009934 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 871963009935 TM-ABC transporter signature motif; other site 871963009936 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 871963009937 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 871963009938 putative ligand binding site [chemical binding]; other site 871963009939 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 871963009940 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 871963009941 GDP-binding site [chemical binding]; other site 871963009942 ACT binding site; other site 871963009943 IMP binding site; other site 871963009944 replicative DNA helicase; Region: DnaB; TIGR00665 871963009945 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 871963009946 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 871963009947 Walker A motif; other site 871963009948 ATP binding site [chemical binding]; other site 871963009949 Walker B motif; other site 871963009950 DNA binding loops [nucleotide binding] 871963009951 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 871963009952 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 871963009953 Walker A motif; other site 871963009954 ATP binding site [chemical binding]; other site 871963009955 Walker B motif; other site 871963009956 arginine finger; other site 871963009957 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 871963009958 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 871963009959 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 871963009960 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 871963009961 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 871963009962 MazG-like family; Region: MazG-like; pfam12643 871963009963 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 871963009964 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 871963009965 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 871963009966 dimer interface [polypeptide binding]; other site 871963009967 ssDNA binding site [nucleotide binding]; other site 871963009968 tetramer (dimer of dimers) interface [polypeptide binding]; other site 871963009969 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 871963009970 GTP-binding protein YchF; Reviewed; Region: PRK09601 871963009971 YchF GTPase; Region: YchF; cd01900 871963009972 G1 box; other site 871963009973 GTP/Mg2+ binding site [chemical binding]; other site 871963009974 Switch I region; other site 871963009975 G2 box; other site 871963009976 Switch II region; other site 871963009977 G3 box; other site 871963009978 G4 box; other site 871963009979 G5 box; other site 871963009980 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 871963009981 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 871963009982 FOG: CBS domain [General function prediction only]; Region: COG0517 871963009983 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 871963009984 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 871963009985 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 871963009986 binding surface 871963009987 TPR motif; other site 871963009988 TPR repeat; Region: TPR_11; pfam13414 871963009989 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 871963009990 G1 box; other site 871963009991 GTP/Mg2+ binding site [chemical binding]; other site 871963009992 G2 box; other site 871963009993 Switch I region; other site 871963009994 G3 box; other site 871963009995 Switch II region; other site 871963009996 G4 box; other site 871963009997 G5 box; other site 871963009998 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 871963009999 Uncharacterized membrane protein [Function unknown]; Region: COG3949 871963010000 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 871963010001 Protein of unknown function (DUF554); Region: DUF554; pfam04474 871963010002 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 871963010003 ParB-like nuclease domain; Region: ParB; smart00470 871963010004 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 871963010005 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 871963010006 P-loop; other site 871963010007 Magnesium ion binding site [ion binding]; other site 871963010008 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 871963010009 Magnesium ion binding site [ion binding]; other site 871963010010 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 871963010011 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 871963010012 S-adenosylmethionine binding site [chemical binding]; other site 871963010013 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 871963010014 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 871963010015 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 871963010016 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 871963010017 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 871963010018 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 871963010019 trmE is a tRNA modification GTPase; Region: trmE; cd04164 871963010020 G1 box; other site 871963010021 GTP/Mg2+ binding site [chemical binding]; other site 871963010022 Switch I region; other site 871963010023 G2 box; other site 871963010024 Switch II region; other site 871963010025 G3 box; other site 871963010026 G4 box; other site 871963010027 G5 box; other site 871963010028 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 871963010029 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 871963010030 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 871963010031 G-X-X-G motif; other site 871963010032 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 871963010033 RxxxH motif; other site 871963010034 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 871963010035 Haemolytic domain; Region: Haemolytic; pfam01809 871963010036 Ribonuclease P; Region: Ribonuclease_P; pfam00825